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 2,011,752 T→C S168P (TCC→CCC)  fliF → FliF

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,011,7520TC99.5% 616.4 / ‑5.2 199S168P (TCC→CCC) fliFFliF
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (102/96);  total (102/97)
Fisher's exact test for biased strand distribution p-value = 4.87e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.78e-01

Only 100 of 203 total aligned reads displayed.

TCTCGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAATCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAGC  >  NC_000913/2011662‑2011841
                                                                                          |                                                                                         
 ctcGTACAATCGAACCTATCGGCCCAGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAAcccc                                                                                        <  2:1029490/93‑1 (MQ=255)
  tcGTACCATCGAACCTATCGGCCCGGTAGAAGGGGCGCGCGTACATCTGGCAATGCCGAACCCGTCTTTATTCATCCGTGAACAAAAACcccc                                                                                       <  1:7043796/93‑1 (MQ=255)
  tcGTACCATCGAAACTATCGGNCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACcccc                                                                                       <  1:6393331/93‑1 (MQ=255)
  tcGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACcccc                                                                                       <  1:7374266/93‑1 (MQ=255)
  tcGTACCATCGAAACAATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACcccc                                                                                       >  1:5785218/1‑93 (MQ=255)
   cGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCt                                                                                      >  1:4736254/1‑93 (MQ=255)
      aCCATCGAAACTATCGGCCCGGTTAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCt                                                                                   <  2:4295181/93‑1 (MQ=255)
       ccATCGAAACTATCGGCCCAGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTg                                                                                  >  2:4764939/1‑93 (MQ=255)
       ccATCGAAACTATCGGCCCAGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTg                                                                                  >  1:7257002/1‑93 (MQ=255)
        cATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGc                                                                                 <  1:4697260/93‑1 (MQ=255)
        cATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGc                                                                                 >  1:1352513/1‑93 (MQ=255)
          tCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCAt                                                                               >  1:5542567/1‑93 (MQ=255)
           cGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATc                                                                              <  1:6675920/93‑1 (MQ=255)
           cGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATc                                                                              <  1:2514494/93‑1 (MQ=255)
           cGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATGCGTCCGTGAACAAAAACCCCCTTCTGCATc                                                                              <  2:3717674/93‑1 (MQ=255)
           cGAAACTATCGGCACGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATc                                                                              <  1:7296411/93‑1 (MQ=255)
              aaCTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGt                                                                           <  2:3262912/93‑1 (MQ=255)
               aCTATCGGCCCGGGAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTg                                                                          <  1:7156228/93‑1 (MQ=255)
                cTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATCCGTCCGTTAACAAAAACCCCCTTCTGCATCGGTGa                                                                         <  1:2555582/93‑1 (MQ=255)
                 tATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGAc                                                                        >  2:3398187/1‑93 (MQ=255)
                 tATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGAc                                                                        >  1:6143552/1‑93 (MQ=255)
                 tATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGAc                                                                        >  1:2442280/1‑93 (MQ=255)
                 tATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGAc                                                                        <  2:4531539/93‑1 (MQ=255)
                 tATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTATTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGAc                                                                        >  1:2402023/1‑93 (MQ=255)
                  aTCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACg                                                                       >  2:7467658/1‑93 (MQ=255)
                  aTCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACg                                                                       >  1:692052/1‑93 (MQ=255)
                     ggCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTa                                                                    >  2:490063/1‑93 (MQ=255)
                     ggCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTa                                                                    <  2:4701802/93‑1 (MQ=255)
                      gCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTaa                                                                   >  2:3455165/1‑93 (MQ=255)
                      gCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTaa                                                                   >  2:6823272/1‑93 (MQ=255)
                      gCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTaa                                                                   >  2:6382448/1‑93 (MQ=255)
                       cccGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAACCCCCCTTCTGCATCGGTGACGGTaaa                                                                  <  2:4041146/93‑1 (MQ=255)
                       cccGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTaaa                                                                  <  1:7473353/93‑1 (MQ=255)
                         cGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATc                                                                <  2:4568018/93‑1 (MQ=255)
                         cGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATc                                                                <  1:2029408/93‑1 (MQ=255)
                         cGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATc                                                                >  1:7437442/1‑93 (MQ=255)
                         cGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATc                                                                >  1:3807162/1‑93 (MQ=255)
                            tAAAAGTGGCGCTCGTACATCGGGCAATGCCGAAACCGTCTTTATTCTTCCGTGAACAAAATCCCCCTTCTGCATCGGTGACGGTAAATCTGt                                                             <  2:1311810/93‑1 (MQ=255)
                            tAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGt                                                             <  2:3176416/93‑1 (MQ=255)
                            tAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGt                                                             <  2:7831551/93‑1 (MQ=255)
                             aaaaGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGtt                                                            <  2:6263927/93‑1 (MQ=255)
                             aaaaGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGtt                                                            >  1:7590675/1‑93 (MQ=255)
                              aaaGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTa                                                           <  1:1940512/93‑1 (MQ=255)
                               acggggCGCGCGGACCTCGGGCAATGCCGACACCGTCGTTAGTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTAc                                                          <  1:4076739/91‑1 (MQ=255)
                                aGGGGCGCGCGCACAACTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTccc                                                         <  1:2100215/93‑1 (MQ=255)
                                 ggggCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTAccc                                                        <  1:3489345/93‑1 (MQ=255)
                                   ggCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCgg                                                      >  1:4599637/1‑93 (MQ=255)
                                      gcgcgTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCcg                                                   <  2:5718404/93‑1 (MQ=255)
                                       cgcgTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCcgc                                                  <  1:1419334/93‑1 (MQ=255)
                                         cgTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCgcgc                                                <  1:1063925/93‑1 (MQ=255)
                                          gTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCa                                               <  1:7273853/93‑1 (MQ=255)
                                          gTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCa                                               <  1:2879311/93‑1 (MQ=255)
                                           tACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCAc                                              >  2:7172049/1‑93 (MQ=255)
                                           tACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCAc                                              >  2:2535040/1‑93 (MQ=255)
                                             cATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTc                                            >  1:984468/1‑93 (MQ=255)
                                             cATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTc                                            <  1:4334236/93‑1 (MQ=255)
                                              aTCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCg                                           >  1:3018843/1‑93 (MQ=255)
                                               tCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGa                                          <  2:760821/93‑1 (MQ=255)
                                               tCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGa                                          <  1:4382271/93‑1 (MQ=255)
                                               tCTGGCAATGCCGAAACCGCCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGa                                          <  2:3001697/93‑1 (MQ=255)
                                                cTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACTCGGCCGCGCACTCGAt                                         >  1:5049300/1‑93 (MQ=255)
                                                 tGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATg                                        >  1:3939152/1‑93 (MQ=255)
                                                 tGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCGGTTACCCGGCCGCGCACTCGATg                                        >  2:4345034/1‑93 (MQ=255)
                                                  ggCAATGTCCAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGa                                       <  2:1844535/93‑1 (MQ=255)
                                                   gCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGaa                                      <  1:1195930/93‑1 (MQ=255)
                                                       tGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGc                                  >  1:1768899/1‑93 (MQ=255)
                                                           gAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAAt                              >  1:1797005/1‑93 (MQ=255)
                                                           gAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAAt                              >  2:1811909/1‑93 (MQ=255)
                                                             aaCCGTCTTTATTCGTCCGTGAAC‑AAAACCCCCCTCTTGATTGGGGACGGGAAAACTGGTACCCCGCCGCGCACCCGGTGAAGGGGAAATTAg                           >  1:6331547/1‑93 (MQ=255)
                                                               ccGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGATAGGCAAATTAgc                          >  1:1911404/1‑93 (MQ=255)
                                                               ccGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAgc                          <  1:2663660/93‑1 (MQ=255)
                                                                cGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAgcg                         >  1:7059755/1‑93 (MQ=255)
                                                                 gTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAgcgc                        >  2:2865261/1‑93 (MQ=255)
                                                                 ctCTTTATTCGTCCGTGAACAAAACCCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAgcgc                        <  2:5514547/92‑1 (MQ=255)
                                                                  tCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGcc                       >  2:705909/1‑93 (MQ=255)
                                                                  tCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGcc                       >  2:5282806/1‑93 (MQ=255)
                                                                  tCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGcc                       >  1:1097960/1‑93 (MQ=255)
                                                                   cTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCCGTGACGGTAAATCTGTTACCCGGCTGCGCACTCGATGAAGGGCAAATTAGCGCCa                      >  1:7780686/1‑93 (MQ=255)
                                                                    tttATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCAt                     >  2:3417624/1‑93 (MQ=255)
                                                                      tATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATtg                   >  1:3285452/1‑93 (MQ=255)
                                                                       aTTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATtgt                  >  2:7659491/1‑93 (MQ=255)
                                                                       aTTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATtgt                  <  1:3494951/93‑1 (MQ=255)
                                                                            tCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATc             >  1:21640/1‑93 (MQ=255)
                                                                            tCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATc             <  2:1416299/93‑1 (MQ=255)
                                                                             ccGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCt            <  1:272519/93‑1 (MQ=255)
                                                                             ccGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCt            <  1:479396/93‑1 (MQ=255)
                                                                              cGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTg           <  1:1437155/93‑1 (MQ=255)
                                                                              cGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTg           <  2:3876089/93‑1 (MQ=255)
                                                                              cGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTg           <  2:1045434/93‑1 (MQ=255)
                                                                              cGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTg           >  1:564452/1‑93 (MQ=255)
                                                                              cGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTg           <  1:5948580/93‑1 (MQ=255)
                                                                               gTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTgg          >  2:5104431/1‑93 (MQ=255)
                                                                                 gAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGtt        >  2:5463353/1‑93 (MQ=255)
                                                                                 gAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGtt        <  2:2905812/93‑1 (MQ=255)
                                                                                    cAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTcc     <  2:2718414/93‑1 (MQ=255)
                                                                                     aaaaaCCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCa    <  2:5192119/93‑1 (MQ=255)
                                                                                     aaaaaCCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCa    <  2:6064846/93‑1 (MQ=255)
                                                                                      aaaaCCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCac   >  2:5341408/1‑92 (MQ=255)
                                                                                      aaaaCCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAg   >  2:6609303/1‑93 (MQ=255)
                                                                                      aaaaCCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAg   <  2:7366952/93‑1 (MQ=255)
                                                                                          |                                                                                         
TCTCGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAATCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAGC  >  NC_000913/2011662‑2011841

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ 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
CTTTCTCGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAATCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAGCGCCG  >  NC_000913/2011659‑2011845
                                                                                             |                                                                                             
CTTTCTCGTACCATCGAAACTATCGGCCCAGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAAC                                                                                               <  SRR4302543.3818707/94‑1 (MQ=60)
 TTTCTCGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACC                                                                                              <  SRR4302543.2684061/94‑1 (MQ=60)
 TTTCTCGTACCATCGAAACTATCAGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCTTCCGTGAACAAAAACC                                                                                              >  SRR4302543.2409752/1‑94 (MQ=60)
  TTCTCGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCC                                                                                             >  SRR4302543.2817824/1‑94 (MQ=60)
  TTCTCGTACCATCGAAACTATCGGCCCAGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCC                                                                                             <  SRR4302543.5130299/94‑1 (MQ=60)
    CTCGTACCATCGAAACAATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCC                                                                                           >  SRR4302543.5837857/1‑94 (MQ=60)
     TCGTACCATCGAACCTATCGGCCCGGTAGAAGGGGCGCGCGTACATCTGGCAATGCCGAACCCGTCTTTATTCATCCGTGAACAAAAACCCCCT                                                                                          <  SRR4302543.7111936/94‑1 (MQ=60)
     TCGTACCATCGAAACTATCGGNCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCT                                                                                          <  SRR4302543.6453516/94‑1 (MQ=60)
     TCGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCT                                                                                          >  SRR4302543.4779540/1‑94 (MQ=60)
     TCGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCT                                                                                          <  SRR4302543.7520414/94‑1 (MQ=60)
     TCGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCT                                                                                          <  SRR4302543.7445157/94‑1 (MQ=60)
       GTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTC                                                                                        <  SRR4302543.1388951/94‑1 (MQ=60)
       GTACCATAGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTCGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTC                                                                                        <  SRR4302543.102959/94‑1 (MQ=60)
        TACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCT                                                                                       <  SRR4302543.266093/94‑1 (MQ=60)
        TACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCT                                                                                       <  SRR4302543.3187499/94‑1 (MQ=60)
         ACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTG                                                                                      <  SRR4302543.5410935/94‑1 (MQ=60)
         ACCATCGAAACTATCGGCCCAGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTG                                                                                      >  SRR4302543.7327152/1‑94 (MQ=60)
          CCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGC                                                                                     >  SRR4302543.1364612/1‑94 (MQ=60)
           CATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCA                                                                                    >  SRR4302543.3877539/1‑94 (MQ=60)
           CATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCA                                                                                    <  SRR4302543.4740161/94‑1 (MQ=60)
            ATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCAT                                                                                   >  SRR4302543.5592963/1‑94 (MQ=60)
              CGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTCCATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCG                                                                                 <  SRR4302543.2537327/94‑1 (MQ=60)
              CGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCG                                                                                 <  SRR4302543.6738950/94‑1 (MQ=60)
              CGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCG                                                                                 <  SRR4302543.2537328/94‑1 (MQ=60)
              CGAAACTATCGGCACGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCG                                                                                 <  SRR4302543.7366810/94‑1 (MQ=60)
               GAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGG                                                                                <  SRR4302543.1932256/94‑1 (MQ=60)
                 AACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTG                                                                              >  SRR4302543.4810632/1‑94 (MQ=60)
                  ACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCAGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGA                                                                             <  SRR4302543.7225780/94‑1 (MQ=60)
                  ACTATCGGCCCGGGAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGA                                                                             <  SRR4302543.7225778/94‑1 (MQ=60)
                  ACTATCGGCCCAGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGA                                                                             <  SRR4302543.5822598/94‑1 (MQ=60)
                  ACTATCGGCCCAGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGA                                                                             <  SRR4302543.6085346/94‑1 (MQ=60)
                   CTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGggag                                                                            >  SRR4302543.837778/1‑90 (MQ=60)
                   CTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGAC                                                                            >  SRR4302543.2464296/1‑94 (MQ=60)
                   CTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGAC                                                                            >  SRR4302543.6201737/1‑94 (MQ=60)
                   CTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATCCGTCCGTTAACAAAAACCCCCTTCTGCATCGGTGAC                                                                            <  SRR4302543.2578946/94‑1 (MQ=60)
                   CTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTATTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGAC                                                                            >  SRR4302543.2423739/1‑94 (MQ=60)
                    TATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACG                                                                           >  SRR4302543.698399/1‑94 (MQ=60)
                          CCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAAT                                                                     <  SRR4302543.7544912/94‑1 (MQ=60)
                          CCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAAT                                                                     <  SRR4302543.488975/94‑1 (MQ=60)
                          CCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAAT                                                                     <  SRR4302543.1869098/94‑1 (MQ=60)
                           CCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATC                                                                    >  SRR4302543.3840727/1‑94 (MQ=60)
                           CCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATC                                                                    >  SRR4302543.7508736/1‑94 (MQ=60)
                            CGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCT                                                                   <  SRR4302543.2047651/94‑1 (MQ=60)
                            CGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCT                                                                   <  SRR4302543.1982056/94‑1 (MQ=60)
                            CGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCT                                                                   >  SRR4302543.331779/1‑94 (MQ=60)
                             GGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTG                                                                  <  SRR4302543.7347032/94‑1 (MQ=60)
                               TAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTT                                                                >  SRR4302543.7662794/1‑94 (MQ=60)
                                 AAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTAC                                                              <  SRR4302543.1957944/94‑1 (MQ=60)
                                  ACGGGGCGCGCGGACCTCGGGCAATGCCGACACCGTCGTTAGTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACC                                                             <  SRR4302543.4113284/94‑1 (MQ=60)
                                   AGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCC                                                            <  SRR4302543.2119004/94‑1 (MQ=60)
                                   AGGGGCGCGCGCACAACTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTCCCC                                                            <  SRR4302543.2119005/94‑1 (MQ=60)
                                    GGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCG                                                           <  SRR4302543.3520578/94‑1 (MQ=60)
                                     GGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGG                                                          >  SRR4302543.4641424/1‑94 (MQ=60)
                                      GGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGC                                                         <  SRR4302543.155151/94‑1 (MQ=60)
                                          CGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCG                                                     <  SRR4302543.1432180/94‑1 (MQ=60)
                                            CGTACATCTGGTAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCC                                                   >  SRR4302543.5896828/1‑94 (MQ=60)
                                            CGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCA                                                   <  SRR4302543.1073483/94‑1 (MQ=60)
                                             GTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCAC                                                  >  SRR4302543.6944754/1‑94 (MQ=60)
                                             GTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCAC                                                  <  SRR4302543.2905511/94‑1 (MQ=60)
                                             GTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCAC                                                  <  SRR4302543.7344113/94‑1 (MQ=60)
                                              TACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACT                                                 >  SRR4302543.2552921/1‑94 (MQ=60)
                                               ACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTC                                                >  SRR4302543.993163/1‑94 (MQ=60)
                                               ACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTC                                                >  SRR4302543.2986662/1‑94 (MQ=60)
                                                CATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCG                                               <  SRR4302543.4373555/94‑1 (MQ=60)
                                                CATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCG                                               >  SRR4302543.4756748/1‑94 (MQ=60)
                                                CATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCG                                               >  SRR4302543.7331895/1‑94 (MQ=60)
                                                CATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCG                                               >  SRR4302543.3046142/1‑94 (MQ=60)
                                                  TCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACTCGGCCGCGCACTCGAT                                             >  SRR4302543.5095209/1‑94 (MQ=60)
                                                  TCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGAT                                             <  SRR4302543.4421996/94‑1 (MQ=60)
                                                   CTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATG                                            >  SRR4302543.3973974/1‑94 (MQ=60)
                                                   CTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATG                                            <  SRR4302543.5631073/94‑1 (MQ=60)
                                                     GGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAA                                          >  SRR4302543.4559657/1‑94 (MQ=60)
                                                      GCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAG                                         <  SRR4302543.1206709/94‑1 (MQ=60)
                                                        AATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGG                                       >  SRR4302543.7130251/1‑94 (MQ=60)
                                                        AATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGG                                       >  SRR4302543.6313049/1‑94 (MQ=60)
                                                         ATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGC                                      >  SRR4302543.1784717/1‑94 (MQ=60)
                                                         ATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGC                                      <  SRR4302543.772901/94‑1 (MQ=60)
                                                         ATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGC                                      <  SRR4302543.1086886/94‑1 (MQ=60)
                                                         ATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCGTTTACCCGGCCGCGCACTCGATCAAGGGC                                      >  SRR4302543.1784949/1‑94 (MQ=60)
                                                             CGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAAT                                  >  SRR4302543.1813093/1‑94 (MQ=60)
                                                             CGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAAT                                  <  SRR4302543.7474096/94‑1 (MQ=60)
                                                             CGAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAAT                                  >  SRR4302543.2452664/1‑94 (MQ=60)
                                                              GAAACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATT                                 <  SRR4302543.7375059/94‑1 (MQ=60)
                                                                AACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAG                               <  SRR4302543.4026111/94‑1 (MQ=60)
                                                                 ACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGATAGGCAAATTAGC                              >  SRR4302543.1928627/1‑94 (MQ=60)
                                                                 ACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGC                              >  SRR4302543.4257170/1‑94 (MQ=60)
                                                                 ACCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGC                              >  SRR4302543.4647113/1‑94 (MQ=60)
                                                                 ACCGGCTTTATTCGGCCGTGAACAAAAACCTCCCTCGGCATCGGTGACGGTAAATCTGTTACTCGGCCGCGCACTCGATGTAGGGTAAATGAGC                              >  SRR4302543.7116179/1‑94 (MQ=44)
                                                                  CCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCG                             <  SRR4302543.2687811/94‑1 (MQ=60)
                                                                  CCGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCG                             >  SRR4302543.7128271/1‑94 (MQ=60)
                                                                   CGTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGC                            >  SRR4302543.3525781/1‑94 (MQ=60)
                                                                    GTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCC                           >  SRR4302543.1107845/1‑94 (MQ=60)
                                                                    GTCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCC                           >  SRR4302543.5388226/1‑94 (MQ=60)
                                                                     TCTTTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCCGTGACGGTAAATCTGTTACCCGGCTGCGCACTCGATGAAGGGCAAATTAGCGCCA                          >  SRR4302543.7854049/1‑94 (MQ=60)
                                                                        TTATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTG                       >  SRR4302543.3315106/1‑94 (MQ=60)
                                                                         gagTCGTCCGTGAACAACACCCCCCTTCTGCATCCGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGT                      <  SRR4302543.7152265/91‑1 (MQ=60)
                                                                         TATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGT                      <  SRR4302543.2186208/94‑1 (MQ=60)
                                                                          ATTCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTG                     <  SRR4302543.3526224/94‑1 (MQ=60)
                                                                            TCGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCA                   <  SRR4302543.6671303/94‑1 (MQ=60)
                                                                             CGTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCAC                  >  SRR4302543.1438324/1‑94 (MQ=60)
                                                                              GTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGCTGAAGGGCAAATTAGCGCCATTGTGCATC                 >  SRR4302543.2711029/1‑94 (MQ=60)
                                                                              GTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATC                 >  SRR4302543.21840/1‑94 (MQ=60)
                                                                              GTCCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATC                 >  SRR4302543.6405627/1‑94 (MQ=60)
                                                                                CCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTG               >  SRR4302543.569629/1‑94 (MQ=60)
                                                                                CCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTG               <  SRR4302543.274915/94‑1 (MQ=60)
                                                                                CCGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTG               <  SRR4302543.483827/94‑1 (MQ=60)
                                                                                 CGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGG              <  SRR4302543.6003018/94‑1 (MQ=60)
                                                                                 CGTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGG              <  SRR4302543.1450146/94‑1 (MQ=60)
                                                                                  GTGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGGGCATCTGGT             >  SRR4302543.110981/1‑94 (MQ=60)
                                                                                   TGAACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTT            <  SRR4302543.7572712/94‑1 (MQ=60)
                                                                                     AACAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTC          <  SRR4302543.4413525/94‑1 (MQ=60)
                                                                                       CAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCA        <  SRR4302543.1283140/94‑1 (MQ=60)
                                                                                       CAAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCA        <  SRR4302543.3676676/94‑1 (MQ=60)
                                                                                        AAAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAG       <  SRR4302543.2170584/94‑1 (MQ=60)
                                                                                         AAAACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAGC      <  SRR4302543.70117/94‑1 (MQ=60)
                                                                                           AACCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAGCGC    >  SRR4302543.2500896/1‑94 (MQ=60)
                                                                                             CCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAGCGCCG  <  SRR4302543.1178662/94‑1 (MQ=60)
                                                                                             CCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAGCGCCG  >  SRR4302543.5667418/1‑94 (MQ=60)
                                                                                             CCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAGCGCCG  >  SRR4302543.4007435/1‑94 (MQ=60)
                                                                                             |                                                                                             
CTTTCTCGTACCATCGAAACTATCGGCCCGGTAAAAGGGGCGCGCGTACATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAATCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAGGGCAAATTAGCGCCATTGTGCATCTGGTTTCCAGCGCCG  >  NC_000913/2011659‑2011845

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑