Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 593 264.2 13311096 97.8% 13018251 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,707,029 T→C E132E (GAA→GAG)  rseA ← sigma‑E factor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,707,0290TC84.4% 565.4 / 92.9 231E132E (GAA→GAG) rseAsigma‑E factor
Reads supporting (aligned to +/- strand):  ref base T (18/18);  new base C (88/107);  total (106/125)
Fisher's exact test for biased strand distribution p-value = 5.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.61e-01

Only 100 of 238 total aligned reads displayed.

TGTTGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTG  >  NC_000913/2706937‑2707118
                                                                                            |                                                                                         
  ttGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGtctc                                                                                         <  2:6373444/93‑1 (MQ=255)
  ttGACCATTGTTTGCGGTCGCTTCAGAAGATACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGtctc                                                                                         <  2:4659429/93‑1 (MQ=255)
   tGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCg                                                                                        <  2:1288789/93‑1 (MQ=255)
    gACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCgg                                                                                       >  1:4532475/1‑93 (MQ=255)
     aCCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCggg                                                                                      <  1:5613008/93‑1 (MQ=255)
       cATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGgct                                                                                    <  2:4819317/93‑1 (MQ=255)
        aTTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGgctg                                                                                   >  2:4617166/1‑93 (MQ=255)
        aTTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGgctg                                                                                   >  2:5740383/1‑93 (MQ=255)
         ttGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGCCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGgctgc                                                                                  <  1:4421932/93‑1 (MQ=255)
          tGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGgctgct                                                                                 <  2:2218368/93‑1 (MQ=255)
          tGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGgctgct                                                                                 <  1:1002617/93‑1 (MQ=255)
           gTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGctgctg                                                                                <  2:1069203/93‑1 (MQ=255)
            tttGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTgg                                                                               >  1:468383/1‑93 (MQ=255)
              tGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGa                                                                             <  2:591509/93‑1 (MQ=255)
               gCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGAc                                                                            <  2:2354137/93‑1 (MQ=255)
               gCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGAc                                                                            <  1:6560042/93‑1 (MQ=255)
                cGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACg                                                                           >  1:3772356/1‑93 (MQ=255)
                cGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACg                                                                           <  1:4321697/93‑1 (MQ=255)
                  gTCGCTTCAGAAGGTACTCCCAGGCTTCCCGGGCTTGCTTTACCCATCATCGGCAGTGTATTAAATACCGACGTCTCGGGCTGCTGGGACGtt                                                                         <  2:1693841/93‑1 (MQ=255)
                  gTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACgct                                                                         >  1:4874027/1‑91 (MQ=255)
                    cGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTc                                                                       >  1:4840676/1‑93 (MQ=255)
                    cGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTc                                                                       <  1:237147/93‑1 (MQ=255)
                     gCTTCAGAAGGTACTCCCAGTCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCa                                                                      <  2:3770/93‑1 (MQ=255)
                     gCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCa                                                                      >  1:751707/1‑93 (MQ=255)
                     gCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCa                                                                      >  2:5102447/1‑93 (MQ=255)
                      cTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAg                                                                     <  2:5603186/93‑1 (MQ=255)
                       ttCAGAAGGTGCTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGa                                                                    <  1:2757195/93‑1 (MQ=255)
                       ttCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGa                                                                    >  1:6094982/1‑93 (MQ=255)
                        tCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGAt                                                                   <  1:4772431/93‑1 (MQ=255)
                          aGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTg                                                                 >  1:1205129/1‑93 (MQ=255)
                           gAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGt                                                                >  1:2640174/1‑93 (MQ=255)
                           gAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGt                                                                >  2:6485039/1‑93 (MQ=255)
                           gAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGt                                                                >  1:5362808/1‑93 (MQ=255)
                            aaGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTc                                                               <  1:3568552/93‑1 (MQ=255)
                                tACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCAtt                                                           <  2:4678514/93‑1 (MQ=255)
                                  cTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATtat                                                         <  2:3254051/93‑1 (MQ=255)
                                   tCCCAGGCTTACTGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATtata                                                        >  1:3666122/1‑93 (MQ=255)
                                   tCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATtata                                                        <  2:6306648/93‑1 (MQ=255)
                                   tCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATtata                                                        >  2:2576647/1‑93 (MQ=255)
                                   tCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATtata                                                        <  1:4929982/93‑1 (MQ=255)
                                   tCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATtata                                                        <  1:6075603/93‑1 (MQ=255)
                                    cccAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAg                                                       >  2:4722818/1‑93 (MQ=255)
                                    cccAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAg                                                       <  2:390950/93‑1 (MQ=255)
                                     ccAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGt                                                      <  2:1430649/93‑1 (MQ=255)
                                     ccAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGt                                                      <  2:1355553/93‑1 (MQ=255)
                                     ccAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGt                                                      <  2:6573264/93‑1 (MQ=255)
                                     ccAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGt                                                      <  2:5551039/93‑1 (MQ=255)
                                      cAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTg                                                     >  1:6232677/1‑93 (MQ=255)
                                      cAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTg                                                     >  1:1495254/1‑93 (MQ=255)
                                       aGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGc                                                    >  2:6367781/1‑93 (MQ=255)
                                       aGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGc                                                    <  2:2646292/93‑1 (MQ=255)
                                       aGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGc                                                    >  2:4060678/1‑93 (MQ=255)
                                        ggCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCt                                                   <  1:145740/93‑1 (MQ=255)
                                        ggCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCt                                                   >  1:6377844/1‑93 (MQ=255)
                                        ggCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCt                                                   >  2:625503/1‑93 (MQ=255)
                                         gCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTg                                                  <  1:3001190/93‑1 (MQ=255)
                                          cTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTgg                                                 >  2:3003516/1‑93 (MQ=255)
                                          cTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTgg                                                 <  2:5646770/93‑1 (MQ=255)
                                          cTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTgg                                                 >  1:2135072/1‑93 (MQ=255)
                                           ttACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGa                                                >  1:1787135/1‑93 (MQ=255)
                                            tACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGAc                                               <  1:95169/93‑1 (MQ=255)
                                             aCCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACg                                              <  1:5956632/93‑1 (MQ=255)
                                               cGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGcc                                            >  1:1940172/1‑93 (MQ=255)
                                                 ggctggctTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCaa                                          >  2:5194215/1‑93 (MQ=255)
                                                 ggctggctTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCaa                                          <  2:2839126/93‑1 (MQ=255)
                                                 ggctggctTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCaa                                          <  1:4234613/93‑1 (MQ=255)
                                                  gctggctTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAAc                                         <  2:5560393/93‑1 (MQ=255)
                                                      gctTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATa                                     >  1:5484807/1‑93 (MQ=255)
                                                       ctTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATaa                                    <  1:5722329/93‑1 (MQ=255)
                                                        tttACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAAc                                   >  2:5485560/1‑93 (MQ=255)
                                                            cccATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCa                               <  1:4614580/93‑1 (MQ=255)
                                                            cccATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCa                               >  2:4255834/1‑93 (MQ=255)
                                                             ccATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCaa                              >  2:5160424/1‑93 (MQ=255)
                                                             ccATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCaa                              >  1:581013/1‑93 (MQ=255)
                                                              catcatCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAg                             >  1:1728970/1‑93 (MQ=255)
                                                              catcatCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAg                             <  2:4982396/93‑1 (MQ=255)
                                                              catcatCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAg                             <  1:5224945/93‑1 (MQ=255)
                                                               atcatcGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGc                            <  1:3986815/93‑1 (MQ=255)
                                                                tcatcGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCg                           >  1:821330/1‑93 (MQ=255)
                                                                 catcGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGa                          <  2:1873371/93‑1 (MQ=255)
                                                                    cGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATAc                       <  2:15375/93‑1 (MQ=255)
                                                                       cAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCa                    <  2:1181654/93‑1 (MQ=255)
                                                                       cAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGCACGCCCACGATAACTGCAAGCGATACGCa                    >  1:5135664/1‑93 (MQ=255)
                                                                        aGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCAt                   >  1:3573129/1‑93 (MQ=255)
                                                                        aGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCAt                   <  2:921435/93‑1 (MQ=255)
                                                                         gtgtATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATg                  <  2:5880441/93‑1 (MQ=255)
                                                                          tgtATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGc                 <  1:1271111/93‑1 (MQ=255)
                                                                           gtATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCATATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCg                <  2:201688/93‑1 (MQ=255)
                                                                           gtATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCg                >  1:3365629/1‑93 (MQ=255)
                                                                           gtATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCg                <  1:3072730/93‑1 (MQ=255)
                                                                            tATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCgg               <  1:2031553/93‑1 (MQ=255)
                                                                            tATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCgg               <  2:3381817/93‑1 (MQ=255)
                                                                               tAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTa            <  1:1392758/93‑1 (MQ=255)
                                                                                  aTACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGc         >  1:4180173/1‑93 (MQ=255)
                                                                                   tACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGcc        >  2:2514076/1‑93 (MQ=255)
                                                                                     ccGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCa      >  2:5890066/1‑93 (MQ=255)
                                                                                     ccGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCa      >  1:2891688/1‑93 (MQ=255)
                                                                                        gCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCAttt   >  2:4945695/1‑93 (MQ=255)
                                                                                        gCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCAttt   >  2:4381844/1‑93 (MQ=255)
                                                                                         cGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTg  <  1:250226/93‑1 (MQ=255)
                                                                                            |                                                                                         
TGTTGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTG  >  NC_000913/2706937‑2707118

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CTGTTGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTGGGTA  >  NC_000913/2706936‑2707122
                                                                                             |                                                                                             
CTGTTGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTT                                                                                               >  SRR4302547.1512021/1‑94 (MQ=60)
  GTTGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTC                                                                                             <  SRR4302547.398699/94‑1 (MQ=60)
  GTTGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTC                                                                                             <  SRR4302547.4256492/94‑1 (MQ=60)
   TTGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCG                                                                                            <  SRR4302547.1315317/94‑1 (MQ=60)
   TTGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCG                                                                                            <  SRR4302547.4658083/94‑1 (MQ=60)
    TGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGG                                                                                           >  SRR4302547.4626152/1‑94 (MQ=60)
     GACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGG                                                                                          >  SRR4302547.3694928/1‑94 (MQ=60)
      ACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGC                                                                                         >  SRR4302547.1966589/1‑94 (MQ=60)
      ACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGC                                                                                         <  SRR4302547.5728839/94‑1 (MQ=60)
       CCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCT                                                                                        <  SRR4302547.1813702/94‑1 (MQ=60)
        CATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTG                                                                                       >  SRR4302547.6331371/1‑94 (MQ=60)
         ATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGC                                                                                      >  SRR4302547.6698383/1‑94 (MQ=60)
         ATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGC                                                                                      >  SRR4302547.323247/1‑94 (MQ=60)
          TTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGCCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCT                                                                                     <  SRR4302547.4513268/94‑1 (MQ=60)
           TGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTG                                                                                    <  SRR4302547.1117749/94‑1 (MQ=60)
           TGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTG                                                                                    <  SRR4302547.4764131/94‑1 (MQ=60)
           TGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTG                                                                                    <  SRR4302547.1022180/94‑1 (MQ=60)
           TGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTG                                                                                    >  SRR4302547.6329904/1‑94 (MQ=60)
            GTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGG                                                                                   >  SRR4302547.477007/1‑94 (MQ=60)
               TGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGAC                                                                                <  SRR4302547.4644895/94‑1 (MQ=60)
               TGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGAC                                                                                <  SRR4302547.4913270/94‑1 (MQ=60)
               TGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTCGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGAG                                                                                >  SRR4302547.935697/1‑94 (MQ=60)
                GCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACG                                                                               <  SRR4302547.3560495/94‑1 (MQ=60)
                GCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACG                                                                               <  SRR4302547.6696638/94‑1 (MQ=60)
                GCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACG                                                                               <  SRR4302547.295859/94‑1 (MQ=60)
                GCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACG                                                                               >  SRR4302547.3849292/1‑94 (MQ=60)
                 CGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGT                                                                              <  SRR4302547.4410661/94‑1 (MQ=60)
                  GGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTT                                                                             >  SRR4302547.1687479/1‑94 (MQ=60)
                  GGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGCT                                                                             >  SRR4302547.4975026/1‑94 (MQ=60)
                    TCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTC                                                                           >  SRR4302547.4941003/1‑94 (MQ=60)
                     CGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCA                                                                          >  SRR4302547.765883/1‑94 (MQ=60)
                     CGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCA                                                                          <  SRR4302547.241598/94‑1 (MQ=60)
                      GCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAG                                                                         <  SRR4302547.6008300/94‑1 (MQ=60)
                       CTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGA                                                                        >  SRR4302547.2226227/1‑94 (MQ=60)
                       CTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGA                                                                        >  SRR4302547.6221421/1‑94 (MQ=60)
                       CTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCCGCAGTGTATTAAATACCCGCGTCTCGGGCTGCTGGGACGTTTCAGA                                                                        >  SRR4302547.3641859/1‑94 (MQ=60)
                        TTCAGAAGGTGCTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGAT                                                                       <  SRR4302547.2812463/94‑1 (MQ=60)
                         TCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATT                                                                      <  SRR4302547.4871302/94‑1 (MQ=60)
                          CAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTG                                                                     >  SRR4302547.1229447/1‑94 (MQ=60)
                           AGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGT                                                                    >  SRR4302547.2693320/1‑94 (MQ=60)
                           AGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGT                                                                    >  SRR4302547.5473429/1‑94 (MQ=60)
                             AAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCC                                                                  <  SRR4302547.3641353/94‑1 (MQ=60)
                              AGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTCTTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCGA                                                                 >  SRR4302547.6770260/1‑94 (MQ=60)
                              AGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCA                                                                 >  SRR4302547.2979210/1‑94 (MQ=60)
                                GTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATT                                                               >  SRR4302547.1373831/1‑94 (MQ=60)
                                   CTCCCAGGCTTACTGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATA                                                            >  SRR4302547.3740903/1‑94 (MQ=60)
                                   CTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATA                                                            <  SRR4302547.5615950/94‑1 (MQ=60)
                                    TCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAG                                                           <  SRR4302547.6201634/94‑1 (MQ=60)
                                    TCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAG                                                           <  SRR4302547.4184772/94‑1 (MQ=60)
                                    TCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAG                                                           <  SRR4302547.5032095/94‑1 (MQ=60)
                                      CCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGAG                                                         >  SRR4302547.509259/1‑94 (MQ=60)
                                      CCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTG                                                         >  SRR4302547.6362157/1‑94 (MQ=60)
                                      CCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTG                                                         >  SRR4302547.1525083/1‑94 (MQ=60)
                                       CAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGC                                                        >  SRR4302547.825668/1‑94 (MQ=60)
                                       CAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGC                                                        <  SRR4302547.6184271/94‑1 (MQ=60)
                                        AGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCT                                                       >  SRR4302547.4937572/1‑94 (MQ=60)
                                        AGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCT                                                       >  SRR4302547.6510937/1‑94 (MQ=60)
                                        AGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCT                                                       >  SRR4302547.4105560/1‑94 (MQ=60)
                                        AGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCT                                                       >  SRR4302547.3506780/1‑94 (MQ=60)
                                         GGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTG                                                      <  SRR4302547.148377/94‑1 (MQ=60)
                                          GCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGG                                                     >  SRR4302547.1646317/1‑94 (MQ=60)
                                          GCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGG                                                     <  SRR4302547.2705078/94‑1 (MQ=60)
                                          GCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGG                                                     >  SRR4302547.2177598/1‑94 (MQ=60)
                                          GCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGG                                                     <  SRR4302547.3060870/94‑1 (MQ=60)
                                          GCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGG                                                     <  SRR4302547.4941703/94‑1 (MQ=60)
                                           CTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGA                                                    <  SRR4302547.2088386/94‑1 (MQ=60)
                                           CTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGA                                                    >  SRR4302547.1822517/1‑94 (MQ=60)
                                             TACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACG                                                  <  SRR4302547.96939/94‑1 (MQ=60)
                                             TACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACG                                                  >  SRR4302547.309090/1‑94 (MQ=60)
                                              ACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGC                                                 >  SRR4302547.5867962/1‑94 (MQ=60)
                                              ACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGC                                                 <  SRR4302547.6080141/94‑1 (MQ=60)
                                               CCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCC                                                >  SRR4302547.1978651/1‑94 (MQ=60)
                                                  GGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAAC                                             <  SRR4302547.4321187/94‑1 (MQ=60)
                                                  GGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAAC                                             <  SRR4302547.2511875/94‑1 (MQ=60)
                                                   GCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACG                                            <  SRR4302547.1229874/94‑1 (MQ=60)
                                                    CTGGCTTTAACCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGA                                           >  SRR4302547.428488/1‑94 (MQ=60)
                                                      GGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATA                                         <  SRR4302547.5389362/94‑1 (MQ=60)
                                                      GGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATA                                         >  SRR4302547.5598071/1‑94 (MQ=60)
                                                        CTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAAC                                       <  SRR4302547.5740712/94‑1 (MQ=60)
                                                        CTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAAC                                       <  SRR4302547.5840544/94‑1 (MQ=60)
                                                        CTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAAC                                       <  SRR4302547.2805509/94‑1 (MQ=60)
                                                           TACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGC                                    >  SRR4302547.6220670/1‑94 (MQ=60)
                                                           TACCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGC                                    >  SRR4302547.2941390/1‑94 (MQ=60)
                                                             CCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAA                                  <  SRR4302547.4710117/94‑1 (MQ=60)
                                                             CCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAA                                  >  SRR4302547.591439/1‑94 (MQ=60)
                                                             CCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAA                                  >  SRR4302547.5356602/1‑94 (MQ=60)
                                                             CCCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAA                                  <  SRR4302547.6483167/94‑1 (MQ=60)
                                                              CCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAG                                 >  SRR4302547.1762935/1‑94 (MQ=60)
                                                              CCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAG                                 <  SRR4302547.3821560/94‑1 (MQ=60)
                                                              CCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAG                                 <  SRR4302547.2635476/94‑1 (MQ=60)
                                                              CCATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAG                                 <  SRR4302547.4799146/94‑1 (MQ=60)
                                                               CATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGC                                >  SRR4302547.498783/1‑94 (MQ=60)
                                                               CATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGC                                <  SRR4302547.5332495/94‑1 (MQ=60)
                                                                ATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCG                               <  SRR4302547.4067880/94‑1 (MQ=60)
                                                                ATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCG                               >  SRR4302547.836986/1‑94 (MQ=60)
                                                                ATCATCGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCG                               >  SRR4302547.5305251/1‑94 (MQ=60)
                                                                  cagcaGCAGTGTATTAAATACCGGTGTCACGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGAT                             <  SRR4302547.2838966/89‑1 (MQ=60)
                                                                     CGGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACG                          <  SRR4302547.1481887/94‑1 (MQ=60)
                                                                      GGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGC                         <  SRR4302547.4330219/94‑1 (MQ=60)
                                                                      GGCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGC                         <  SRR4302547.4423972/94‑1 (MQ=60)
                                                                       GCAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGCACGCCCACGATAACTGCAAGCGATACGCA                        >  SRR4302547.5241472/1‑94 (MQ=60)
                                                                        CAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCAT                       >  SRR4302547.205893/1‑94 (MQ=60)
                                                                        CAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCAT                       >  SRR4302547.3646024/1‑94 (MQ=60)
                                                                        CAGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGACTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCAT                       >  SRR4302547.1933939/1‑94 (MQ=60)
                                                                         AGTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATG                      >  SRR4302547.5183322/1‑94 (MQ=60)
                                                                          GTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGC                     <  SRR4302547.3763295/94‑1 (MQ=60)
                                                                          GTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGC                     <  SRR4302547.6090028/94‑1 (MQ=60)
                                                                          GTGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGC                     <  SRR4302547.2194248/94‑1 (MQ=60)
                                                                           TGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCG                    <  SRR4302547.1296707/94‑1 (MQ=60)
                                                                           TGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCG                    <  SRR4302547.4625371/94‑1 (MQ=60)
                                                                           TGTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCG                    >  SRR4302547.3433985/1‑94 (MQ=60)
                                                                            GTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGG                   >  SRR4302547.5517308/1‑94 (MQ=60)
                                                                            GTATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGG                   <  SRR4302547.3133770/94‑1 (MQ=60)
                                                                             TATTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGC                  <  SRR4302547.2072015/94‑1 (MQ=60)
                                                                              ATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCT                 <  SRR4302547.856694/94‑1 (MQ=60)
                                                                               TTAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTA                <  SRR4302547.581172/94‑1 (MQ=60)
                                                                                TAAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTAC               <  SRR4302547.1420630/94‑1 (MQ=60)
                                                                                 AAATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACG              <  SRR4302547.441477/94‑1 (MQ=60)
                                                                                  AATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGC             >  SRR4302547.4265362/1‑94 (MQ=60)
                                                                                   ATACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCC            >  SRR4302547.6679907/1‑94 (MQ=60)
                                                                                    TACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCC           <  SRR4302547.3935374/94‑1 (MQ=60)
                                                                                     ACCGGCGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCA          >  SRR4302547.2949361/1‑94 (MQ=60)
                                                                                          CGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTGG     <  SRR4302547.254910/94‑1 (MQ=60)
                                                                                          CGTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTGG     >  SRR4302547.4404312/1‑94 (MQ=60)
                                                                                           GTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTGGG    >  SRR4302547.2158476/1‑94 (MQ=60)
                                                                                           GTCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTGGG    <  SRR4302547.4153104/94‑1 (MQ=60)
                                                                                            TCTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTGGGT   >  SRR4302547.427735/1‑94 (MQ=60)
                                                                                             CTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTGGGTA  >  SRR4302547.4011691/1‑94 (MQ=60)
                                                                                             CTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTGGGTA  <  SRR4302547.5191536/94‑1 (MQ=60)
                                                                                             |                                                                                             
CTGTTGACCATTGTTTGCGGTCGCTTCAGAAGGTACTCCCAGGCTTACCGGGCTGGCTTTACCCATCATCGGCAGTGTATTAAATACCGGCGTTTCGGGCTGCTGGGACGTTTCAGATTGTCCATTATAGTGCTGGACGCCAACGATAACTGCAAGCGATACGCATGCGGCTACGCCCATTTGGGTA  >  NC_000913/2706936‑2707122

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑