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 I1 R1 1696 279.3 15874187 97.8% 15524954 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,411,069 T→C T12A (ACC→GCC)  envR ← putative transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,411,0690TC99.5% 633.6 / ‑4.9 199T12A (ACC→GCC) envRputative transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (27/171);  total (27/172)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.14e-01

Only 100 of 205 total aligned reads displayed.

GCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGTCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGG  >  NC_000913/3410981‑3411157
                                                                                        |                                                                                        
gcggcggcgGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTc                                                                                      <  1:6473781/93‑1 (MQ=255)
gcggcgTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTc                                                                                      >  1:5796371/1‑93 (MQ=255)
gcggcgTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTc                                                                                      <  1:5933165/93‑1 (MQ=255)
gcggcgTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTc                                                                                      <  1:6048357/93‑1 (MQ=255)
gcggcgTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTc                                                                                      <  2:5510992/93‑1 (MQ=255)
gcggcgTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTc                                                                                      <  1:388632/93‑1 (MQ=255)
gcggcgTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTc                                                                                      <  1:379616/93‑1 (MQ=255)
gcggcgTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTc                                                                                      <  2:5133117/93‑1 (MQ=255)
 cggcgTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCa                                                                                     <  1:1990963/93‑1 (MQ=255)
 cggcgTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCa                                                                                     <  1:6172157/93‑1 (MQ=255)
      tCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCt                                                                                >  2:1526962/1‑93 (MQ=255)
      gcGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCt                                                                                <  1:1836369/92‑1 (MQ=255)
       cGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCtt                                                                               <  2:2836098/93‑1 (MQ=255)
       cGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCtt                                                                               <  1:6348067/93‑1 (MQ=255)
        ggCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTc                                                                              <  2:1827695/93‑1 (MQ=255)
            aTGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCt                                                                          >  1:828738/1‑93 (MQ=255)
             tGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCtt                                                                         <  1:3573075/93‑1 (MQ=255)
             tGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCtt                                                                         <  2:5035330/93‑1 (MQ=255)
             tGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCtt                                                                         <  2:7265102/93‑1 (MQ=255)
             tGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCtt                                                                         <  2:2440747/93‑1 (MQ=255)
             tGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCtt                                                                         >  2:566581/1‑93 (MQ=255)
             tGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCtt                                                                         <  1:7300561/93‑1 (MQ=255)
              gTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCttt                                                                        <  2:272033/93‑1 (MQ=255)
              gTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCttt                                                                        <  1:7830845/93‑1 (MQ=255)
               tCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTg                                                                       <  1:3396175/93‑1 (MQ=255)
               tCGTTGAGCGTCGTATTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTg                                                                       >  1:4317118/1‑93 (MQ=255)
               gcGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGGTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTg                                                                       <  2:5888856/92‑1 (MQ=255)
                cGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTgg                                                                      <  2:1864348/93‑1 (MQ=255)
                 gTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGt                                                                     <  2:5263257/93‑1 (MQ=255)
                 gTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGt                                                                     <  2:6149486/93‑1 (MQ=255)
                 gTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGt                                                                     >  1:7356442/1‑93 (MQ=255)
                 gTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGt                                                                     >  1:4725920/1‑93 (MQ=255)
                   tGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTc                                                                   <  2:4219157/93‑1 (MQ=255)
                       cgtcttCTTGCTTACTCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCtttt                                                               <  1:2551483/93‑1 (MQ=255)
                       cgtcgtCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCtttt                                                               <  1:4387189/93‑1 (MQ=255)
                        gtcgtcTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCttttt                                                              <  1:5887009/93‑1 (MQ=255)
                           gtcTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGcc                                                           >  2:5443675/1‑93 (MQ=255)
                            tcTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCa                                                          <  2:7799151/93‑1 (MQ=255)
                             cTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCAt                                                         <  2:5529942/93‑1 (MQ=255)
                             cTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCAt                                                         <  2:4642101/93‑1 (MQ=255)
                             cTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCAt                                                         <  2:5780246/93‑1 (MQ=255)
                             cTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCAt                                                         <  2:7331664/93‑1 (MQ=255)
                               tGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGa                                                       <  2:5044332/93‑1 (MQ=255)
                               tGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGa                                                       <  2:6670483/93‑1 (MQ=255)
                                gCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGat                                                      <  1:5391784/93‑1 (MQ=255)
                                   tACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGattaa                                                   <  1:4104643/93‑1 (MQ=255)
                                    aCGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGattaat                                                  <  1:6314931/93‑1 (MQ=255)
                                    aCGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGattaat                                                  <  1:4828454/93‑1 (MQ=255)
                                     cGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGattaatt                                                 <  1:435336/93‑1 (MQ=255)
                                      gCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGattaatta                                                >  1:5262565/1‑93 (MQ=255)
                                      gCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGattaatta                                                <  2:2042766/93‑1 (MQ=255)
                                       ccATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAattat                                               <  2:2608551/93‑1 (MQ=255)
                                         aTGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTc                                             <  2:4804562/93‑1 (MQ=255)
                                         aTGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTc                                             >  1:6760478/1‑93 (MQ=255)
                                          tgctgcGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCa                                            <  1:1116413/93‑1 (MQ=255)
                                          tgctgcGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCa                                            <  2:5834299/93‑1 (MQ=255)
                                          tgctgcGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCa                                            <  2:6364133/93‑1 (MQ=255)
                                          tgctgcGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCa                                            <  1:6854273/93‑1 (MQ=255)
                                           gctgcGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGACCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAg                                           <  1:4539956/93‑1 (MQ=255)
                                            ctgcGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAgg                                          <  1:4108144/93‑1 (MQ=255)
                                              gcgcAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGaa                                        >  2:7598060/1‑93 (MQ=255)
                                                  aaaCTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGaaataa                                    <  2:3159466/93‑1 (MQ=255)
                                                   aaCTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGaaataaa                                   >  2:6146652/1‑93 (MQ=255)
                                                    aCTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGaaataaat                                  <  1:3692177/93‑1 (MQ=255)
                                                    aCTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGaaataaat                                  <  1:462004/93‑1 (MQ=255)
                                                     cTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAaataaata                                 <  2:1155809/93‑1 (MQ=255)
                                                       gggCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAattta                               <  2:5356900/93‑1 (MQ=255)
                                                       gggCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAatata                               <  1:549842/93‑1 (MQ=255)
                                                       gggCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAatata                               <  1:568501/93‑1 (MQ=255)
                                                       gggCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAatata                               <  2:6921027/93‑1 (MQ=255)
                                                        ggCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAatatat                              <  2:3683187/93‑1 (MQ=255)
                                                        ggCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAatatat                              <  2:3759965/93‑1 (MQ=255)
                                                        ggCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAatatat                              <  2:6578740/93‑1 (MQ=255)
                                                         gCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATAtt                             <  2:207926/93‑1 (MQ=255)
                                                         gCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATAtt                             <  1:3155886/93‑1 (MQ=255)
                                                               gCAGTTTCAATCAGTTCTTGCCGGGTCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGacac                       <  1:5153157/93‑1 (MQ=255)
                                                                  gTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACaga                    <  1:652198/93‑1 (MQ=255)
                                                                   tttCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACagag                   >  1:4034526/1‑93 (MQ=255)
                                                                     tCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTg                 <  2:4232479/93‑1 (MQ=255)
                                                                     tCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTg                 <  2:1079793/93‑1 (MQ=255)
                                                                     tCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTg                 <  1:2758131/93‑1 (MQ=255)
                                                                     tCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTg                 >  1:2899809/1‑93 (MQ=255)
                                                                      cAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTga                <  1:7163715/93‑1 (MQ=255)
                                                                      cAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTga                <  1:4486464/93‑1 (MQ=255)
                                                                       aaTCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTgag               <  2:586898/93‑1 (MQ=255)
                                                                        aTCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTgaga              <  2:2381377/93‑1 (MQ=255)
                                                                        aTCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTgaga              <  1:7052087/93‑1 (MQ=255)
                                                                         tCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGCTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGaa             <  1:3295406/93‑1 (MQ=255)
                                                                          cAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGaaa            <  1:6502216/93‑1 (MQ=255)
                                                                           aGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGaaaa           <  1:6659435/93‑1 (MQ=255)
                                                                           aGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGaaaa           <  1:3747073/93‑1 (MQ=255)
                                                                           aGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGaaaa           <  1:882009/93‑1 (MQ=255)
                                                                           aGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGaaaa           <  1:7561376/93‑1 (MQ=255)
                                                                               ttttccGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGc       <  1:5631488/89‑1 (MQ=255)
                                                                               cTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGc       <  1:7717304/93‑1 (MQ=255)
                                                                                 tGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGa     <  2:6280412/93‑1 (MQ=255)
                                                                                   ccGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAg   <  1:5059785/93‑1 (MQ=255)
                                                                                   ccGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAg   <  1:7306610/93‑1 (MQ=255)
                                                                                    cGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAgg  <  1:6349134/93‑1 (MQ=255)
                                                                                    cGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAgg  <  1:929578/93‑1 (MQ=255)
                                                                                        |                                                                                        
GCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGTCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGG  >  NC_000913/3410981‑3411157

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GTTAGCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGTCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGTTAAT  >  NC_000913/3410977‑3411162
                                                                                            |                                                                                             
GTTAGCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCC                                                                                              >  SRR4302543.976289/1‑94 (MQ=60)
GTTAGCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCC                                                                                              <  SRR4302543.5770327/94‑1 (MQ=60)
   AGCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTC                                                                                           >  SRR4302543.5849104/1‑94 (MQ=60)
    GCGGCGTCGGCAGTGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAGCGGGGCGATGGCAGTTTTAATCAGTTCTTGCCGGGCCTTCA                                                                                          <  SRR4302543.1352853/94‑1 (MQ=60)
    GCGGCGTCGGCACTGTCATTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAGCTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCA                                                                                          <  SRR4302543.392223/94‑1 (MQ=60)
    GCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCA                                                                                          <  SRR4302543.383114/94‑1 (MQ=60)
    GCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCA                                                                                          <  SRR4302543.548562/94‑1 (MQ=60)
    GCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCA                                                                                          <  SRR4302543.5987431/94‑1 (MQ=60)
    GCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCA                                                                                          <  SRR4302543.392224/94‑1 (MQ=60)
    GCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCA                                                                                          <  SRR4302543.6105608/94‑1 (MQ=60)
    GCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCA                                                                                          <  SRR4302543.6358573/94‑1 (MQ=60)
    GCGGCGGCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCA                                                                                          <  SRR4302543.6534767/94‑1 (MQ=60)
     CGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAG                                                                                         <  SRR4302543.3802912/94‑1 (MQ=60)
     CGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAG                                                                                         <  SRR4302543.3419819/94‑1 (MQ=60)
     CGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAG                                                                                         <  SRR4302543.6230534/94‑1 (MQ=60)
     CGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAG                                                                                         <  SRR4302543.2008810/94‑1 (MQ=60)
     CGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAG                                                                                         <  SRR4302543.5404251/94‑1 (MQ=60)
       GCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAG                                                                                       <  SRR4302543.669276/94‑1 (MQ=60)
        CGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGC                                                                                      <  SRR4302543.6873881/94‑1 (MQ=60)
          GCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTT                                                                                    <  SRR4302543.6105496/94‑1 (MQ=60)
          GCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTT                                                                                    <  SRR4302543.1852896/94‑1 (MQ=60)
           CGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTC                                                                                   >  SRR4302543.4509186/1‑94 (MQ=60)
           CGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTC                                                                                   <  SRR4302543.6407755/94‑1 (MQ=60)
            GGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCG                                                                                  <  SRR4302543.7372325/94‑1 (MQ=60)
               AATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCT                                                                               >  SRR4302543.836043/1‑94 (MQ=60)
               AATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCT                                                                               <  SRR4302543.7764912/94‑1 (MQ=60)
                 TGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTT                                                                             <  SRR4302543.461233/94‑1 (MQ=60)
                 TGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTT                                                                             <  SRR4302543.4407113/94‑1 (MQ=60)
                 TGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTT                                                                             <  SRR4302543.3604661/94‑1 (MQ=60)
                 TGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTT                                                                             <  SRR4302543.6567345/94‑1 (MQ=60)
                 TGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTT                                                                             <  SRR4302543.7370980/94‑1 (MQ=60)
                 TGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTT                                                                             <  SRR4302543.3604663/94‑1 (MQ=60)
                  GTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTG                                                                            <  SRR4302543.7904580/94‑1 (MQ=60)
                  GTCGTTGAGCGTCGTATTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTG                                                                            >  SRR4302543.4356329/1‑94 (MQ=60)
                   TCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGG                                                                           <  SRR4302543.3426614/94‑1 (MQ=60)
                    CGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGT                                                                          >  SRR4302543.7427207/1‑94 (MQ=60)
                    CGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGT                                                                          >  SRR4302543.4769103/1‑94 (MQ=60)
                      TTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTC                                                                        <  SRR4302543.1908966/94‑1 (MQ=60)
                          GCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTT                                                                    <  SRR4302543.4382984/94‑1 (MQ=60)
                           CGTCTTCTTGCTTACTCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTT                                                                   <  SRR4302543.2574792/94‑1 (MQ=60)
                           CGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTT                                                                   <  SRR4302543.4426968/94‑1 (MQ=60)
                            GTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTG                                                                  <  SRR4302543.5940671/94‑1 (MQ=60)
                            GTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTG                                                                  <  SRR4302543.4556502/94‑1 (MQ=60)
                                TCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGTTTCTTTTTGCCAT                                                              <  SRR4302543.7886504/94‑1 (MQ=60)
                                TCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCAT                                                              <  SRR4302543.92727/94‑1 (MQ=60)
                                 CTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATG                                                             >  SRR4302543.3746311/1‑94 (MQ=60)
                                   TGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGAT                                                           <  SRR4302543.3206909/94‑1 (MQ=60)
                                    GCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATT                                                          <  SRR4302543.6398013/94‑1 (MQ=60)
                                    GCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATT                                                          <  SRR4302543.5440805/94‑1 (MQ=60)
                                       TACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAAT                                                       <  SRR4302543.4141561/94‑1 (MQ=60)
                                        ACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATT                                                      <  SRR4302543.4748672/94‑1 (MQ=60)
                                        ACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATT                                                      <  SRR4302543.1474239/94‑1 (MQ=60)
                                        ACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATT                                                      <  SRR4302543.7989373/94‑1 (MQ=60)
                                        ACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATT                                                      <  SRR4302543.4872512/94‑1 (MQ=60)
                                        ACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATT                                                      <  SRR4302543.6374325/94‑1 (MQ=60)
                                        ACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATT                                                      <  SRR4302543.5586537/94‑1 (MQ=60)
                                        ACGCCATGCTGCGCAAACTGGGCCATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATT                                                      <  SRR4302543.6800990/94‑1 (MQ=60)
                                         CGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTA                                                     <  SRR4302543.439414/94‑1 (MQ=60)
                                         CGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTA                                                     >  SRR4302543.5310041/1‑94 (MQ=60)
                                          GCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTAT                                                    <  SRR4302543.6426345/94‑1 (MQ=60)
                                          GCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTC‑TTTTGCCATGATTAATTATT                                                   >  SRR4302543.5271575/1‑94 (MQ=60)
                                           CCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATT                                                   <  SRR4302543.3106771/94‑1 (MQ=60)
                                            CATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTC                                                  >  SRR4302543.6824326/1‑94 (MQ=60)
                                             ATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCA                                                 <  SRR4302543.6541457/94‑1 (MQ=60)
                                              TGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAG                                                <  SRR4302543.1126519/94‑1 (MQ=60)
                                              TGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAG                                                <  SRR4302543.7314393/94‑1 (MQ=60)
                                              TGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAG                                                <  SRR4302543.6918911/94‑1 (MQ=60)
                                               GCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGG                                               <  SRR4302543.4290051/94‑1 (MQ=60)
                                               GCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGACCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGG                                               <  SRR4302543.4581292/94‑1 (MQ=60)
                                                CTGCGCAAACTGGGCGATGGGAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGA                                              <  SRR4302543.4145106/94‑1 (MQ=60)
                                                CTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGA                                              <  SRR4302543.4145108/94‑1 (MQ=60)
                                                   CGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAAT                                           <  SRR4302543.7198659/94‑1 (MQ=60)
                                                     CAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAA                                         <  SRR4302543.3590996/94‑1 (MQ=60)
                                                       AACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAAT                                       >  SRR4302543.4464700/1‑94 (MQ=60)
                                                        ACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATA                                      <  SRR4302543.466302/94‑1 (MQ=60)
                                                        ACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATA                                      <  SRR4302543.5813737/94‑1 (MQ=60)
                                                        ACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATA                                      <  SRR4302543.3724626/94‑1 (MQ=60)
                                                        ACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATA                                      <  SRR4302543.4787615/94‑1 (MQ=60)
                                                         CTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATAT                                     <  SRR4302543.272651/94‑1 (MQ=60)
                                                          TGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATA                                    >  SRR4302543.5882454/1‑94 (MQ=60)
                                                           GGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATAT                                   <  SRR4302543.573699/94‑1 (MQ=60)
                                                           GGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATAT                                   <  SRR4302543.554906/94‑1 (MQ=60)
                                                            GGCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATT                                  <  SRR4302543.7393189/94‑1 (MQ=60)
                                                             GCGATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTC                                 <  SRR4302543.3184291/94‑1 (MQ=60)
                                                               GATGGCAGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGA                               <  SRR4302543.6922447/94‑1 (MQ=60)
                                                                ATTGCAGTTTCAATCAGTTCTTGCCGGGCCTGCAGAGCTTCGGGTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGAC                              <  SRR4302543.7489884/94‑1 (MQ=60)
                                                                  GGCAGTTTCAATCAGTTATTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACAC                            <  SRR4302543.5684763/94‑1 (MQ=60)
                                                                   GCAGTTTCAATCAGTTCTTGCCGGGTCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACA                           <  SRR4302543.5199729/94‑1 (MQ=60)
                                                                     AGTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGA                         >  SRR4302543.6411350/1‑94 (MQ=60)
                                                                      GTTTCACTCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAG                        <  SRR4302543.594389/94‑1 (MQ=60)
                                                                      GTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAG                        <  SRR4302543.658170/94‑1 (MQ=60)
                                                                      GTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAG                        >  SRR4302543.4070616/1‑94 (MQ=60)
                                                                      GTTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAG                        >  SRR4302543.4070615/1‑94 (MQ=60)
                                                                       TTTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGT                       <  SRR4302543.5094725/94‑1 (MQ=60)
                                                                        TTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTG                      <  SRR4302543.3978081/94‑1 (MQ=60)
                                                                        TTCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTG                      >  SRR4302543.2926174/1‑94 (MQ=60)
                                                                         TCAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGA                     <  SRR4302543.2783217/94‑1 (MQ=60)
                                                                          CAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAG                    <  SRR4302543.4527221/94‑1 (MQ=60)
                                                                          CAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAG                    <  SRR4302543.5107515/94‑1 (MQ=60)
                                                                          CAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAG                    <  SRR4302543.2851966/94‑1 (MQ=60)
                                                                          CAATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAG                    <  SRR4302543.7233305/94‑1 (MQ=60)
                                                                           AATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGA                   <  SRR4302543.6202232/94‑1 (MQ=60)
                                                                            ATCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAA                  <  SRR4302543.7120517/94‑1 (MQ=60)
                                                                             TCAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGCTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAA                 <  SRR4302543.3325139/94‑1 (MQ=60)
                                                                              CAGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAA                <  SRR4302543.6563467/94‑1 (MQ=60)
                                                                               AGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAAT               <  SRR4302543.3780035/94‑1 (MQ=60)
                                                                               AGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAAT               <  SRR4302543.7633349/94‑1 (MQ=60)
                                                                               AGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAAT               <  SRR4302543.6722311/94‑1 (MQ=60)
                                                                               AGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAAT               <  SRR4302543.836181/94‑1 (MQ=60)
                                                                               AGTTCTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAAT               <  SRR4302543.889830/94‑1 (MQ=60)
                                                                                   ttttCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCG           <  SRR4302543.5682805/90‑1 (MQ=60)
                                                                                   CTTGCCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCG           <  SRR4302543.7790286/94‑1 (MQ=60)
                                                                                       CCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGG       <  SRR4302543.7377062/94‑1 (MQ=60)
                                                                                       CCGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGG       <  SRR4302543.5105763/94‑1 (MQ=60)
                                                                                        CGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGT      <  SRR4302543.6408834/94‑1 (MQ=60)
                                                                                        CGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGT      <  SRR4302543.6408835/94‑1 (MQ=60)
                                                                                        CGGGCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGT      <  SRR4302543.937702/94‑1 (MQ=60)
                                                                                        CGGGCCTGCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGT      <  SRR4302543.2522099/94‑1 (MQ=60)
                                                                                           GCCTTCAGCGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGTTAA   <  SRR4302543.2750079/94‑1 (MQ=60)
                                                                                           GCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGTTAA   <  SRR4302543.2750078/94‑1 (MQ=60)
                                                                                           GCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGTTAA   <  SRR4302543.2886617/94‑1 (MQ=60)
                                                                                           GCCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGTTAA   <  SRR4302543.7572832/94‑1 (MQ=60)
                                                                                            CCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGTTAAT  <  SRR4302543.986320/94‑1 (MQ=60)
                                                                                            |                                                                                             
GTTAGCGGCGTCGGCAATGTCGTTGAGCGTCGTCTTGCTTACGCCATGCTGCGCAAACTGGGCGATGGCAGTTTCAATCAGTTCTTGCCGGGTCTTCAGAGCTTCGGCTTTGGTTCTTTTTGCCATGATTAATTATTCAGGAAATAAATATATTCGACACAGAGTGAGAAAATAGCGAAGGTTAAT  >  NC_000913/3410977‑3411162

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑