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
A12 F133 I0 R1 200 171.4 8351354 94.3% 7875326 99.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,853,909 A→G 100% intergenic (+267/‑13) tisB → / → emrD toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,853,9090AG98.8% 542.9 / ‑3.0 162intergenic (+267/‑13)tisB/emrDtoxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein
Reads supporting (aligned to +/- strand):  ref base A (1/1);  new base G (81/77);  total (83/79)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.71e-01

Only 100 of 162 total aligned reads displayed.

TCCTGGCGTATATCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAAGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATAT  >  NC_000913/3853813‑3854004
                                                                                                |                                                                                               
 ccTGGCGTATATCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCAt                                                                                             <  2:2020303/100‑1 (MQ=255)
      cGTATATCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTg                                                                                        >  1:1017766/1‑100 (MQ=255)
      cGTATATCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTg                                                                                        >  2:3707074/1‑100 (MQ=255)
        tataTCTGGCTAACATTCATCAATGTGATAGATTCATCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGAt                                                                                      <  2:3952294/100‑1 (MQ=255)
          tatCTGGCTAACATTCATCAATGTGATATATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATaa                                                                                    <  2:2344945/100‑1 (MQ=255)
          tatCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATaa                                                                                    <  1:415364/100‑1 (MQ=255)
          tatCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATaa                                                                                    <  2:1112008/100‑1 (MQ=255)
          tatCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATaa                                                                                    <  1:337235/100‑1 (MQ=255)
           atCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAAt                                                                                   >  2:759817/1‑100 (MQ=255)
            tCTGGTTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATg                                                                                  <  1:2959692/100‑1 (MQ=255)
               ggCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTCTTTTTATAAAGGCATCCGTGATAATGaaa                                                                               >  1:756980/1‑100 (MQ=255)
               ggCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGaaa                                                                               >  2:1420824/1‑100 (MQ=255)
               ggCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGaaa                                                                               >  1:490613/1‑100 (MQ=255)
               ggCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGCGATAATGaaa                                                                               >  1:2544816/1‑100 (MQ=255)
                 cTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAg                                                                             <  2:478815/100‑1 (MQ=255)
                 cTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAg                                                                             >  1:4019812/1‑100 (MQ=255)
                 cTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAg                                                                             >  2:212818/1‑100 (MQ=255)
                  tAACATTCATTAATGTGATAGATTCTTCTTCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAgg                                                                            <  2:470651/100‑1 (MQ=255)
                   aaCATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGc                                                                           <  2:3365866/100‑1 (MQ=255)
                   aaCATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGc                                                                           <  2:271132/100‑1 (MQ=255)
                     cATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCaa                                                                         >  2:2408511/1‑100 (MQ=255)
                     cATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTAATCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGc                                                                           >  2:1809720/1‑98 (MQ=255)
                      aTTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCaaa                                                                        <  1:1058712/100‑1 (MQ=255)
                       ttCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAg                                                                       <  2:2618739/100‑1 (MQ=255)
                         catcaATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGaa                                                                     <  1:537437/100‑1 (MQ=255)
                         catcaATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGaa                                                                     <  1:205626/100‑1 (MQ=255)
                           tcaATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAAc                                                                   <  1:2371712/100‑1 (MQ=255)
                              aTGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATTAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTc                                                                <  1:472313/100‑1 (MQ=255)
                              aTGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTc                                                                <  2:1524921/100‑1 (MQ=255)
                                gtgATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGGGATAATGAAAAGGCAAAGAAACGTCaa                                                              >  2:3086897/1‑100 (MQ=255)
                                 tgATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAAt                                                             >  1:2519977/1‑100 (MQ=255)
                                  gATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAAtt                                                            >  2:1710120/1‑100 (MQ=255)
                                   aTAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAAttt                                                           <  2:1593909/100‑1 (MQ=255)
                                    tAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTg                                                          <  1:2907078/100‑1 (MQ=255)
                                     aGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGt                                                         <  2:3605516/100‑1 (MQ=255)
                                        ttCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTAt                                                      <  2:2987971/100‑1 (MQ=255)
                                        ttCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTAt                                                      <  1:3462530/100‑1 (MQ=255)
                                        ttCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTAt                                                      <  1:1649922/100‑1 (MQ=255)
                                          ccTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTg                                                    <  1:1024267/100‑1 (MQ=255)
                                           ctctCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGTAAAGAAACGTCAATTTGTTAttaa                                                   >  2:273558/1‑98 (MQ=255)
                                           ctctCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAAttagatcggaa                                                   >  2:2949811/1‑91 (MQ=255)
                                           ctctCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTg                                                    >  1:3437207/1‑99 (MQ=255)
                                           ctctCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGa                                                   <  1:2857022/100‑1 (MQ=255)
                                           ctctCCCGCATATATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGGGATAATGAAAAGGCAAAGAAACGCCACTTTTTTAt                                                      >  1:3739340/1‑97 (MQ=255)
                                            tctcCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGAt                                                  <  2:1622178/100‑1 (MQ=255)
                                             ctcCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGGGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATg                                                 >  1:820830/1‑100 (MQ=255)
                                               cccGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGtt                                               >  1:2062923/1‑100 (MQ=255)
                                               cccGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGtt                                               >  1:1740710/1‑100 (MQ=255)
                                               cccGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGtt                                               <  1:2630651/100‑1 (MQ=255)
                                                ccGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAATGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTg                                              >  2:1747035/1‑100 (MQ=255)
                                                 cGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTgg                                             <  1:2976173/100‑1 (MQ=255)
                                                  gCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGt                                            >  2:2033665/1‑100 (MQ=255)
                                                   cATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTa                                           <  2:601461/100‑1 (MQ=255)
                                                   cATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTa                                           <  2:3034006/100‑1 (MQ=255)
                                                   cATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTa                                           >  1:1917113/1‑100 (MQ=255)
                                                    aTTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTgg                                             <  2:2899451/97‑1 (MQ=255)
                                                    aTTTAGTGGAATGCGTTGTGACTTATTCTAATTATGTTTATCAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTa                                           <  2:3519839/99‑1 (MQ=255)
                                                     tttATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAACGAACAGGCAAAGAAACGCCAATTTGTTACTGATGTTgttctt                                         >  1:2269238/1‑95 (MQ=255)
                                                        aTGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACt                                      >  2:1212047/1‑100 (MQ=255)
                                                        aTGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACt                                      >  1:2588803/1‑100 (MQ=255)
                                                         tGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAACGGCAAAGAAACGTCAATTTGTTATTGATGTGGGTATTACTc                                     >  2:3309180/1‑100 (MQ=255)
                                                          gggAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCg                                    <  1:4159708/100‑1 (MQ=255)
                                                           ggAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGt                                   >  1:770512/1‑100 (MQ=255)
                                                           ggAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGt                                   >  2:304224/1‑100 (MQ=255)
                                                           ggAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGt                                   >  2:733139/1‑100 (MQ=255)
                                                           ggAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGt                                   >  2:707661/1‑100 (MQ=255)
                                                              aTGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGc                                <  1:3160990/100‑1 (MQ=255)
                                                              aTGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGc                                <  2:2833602/100‑1 (MQ=255)
                                                                 cGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGt                             >  2:3185680/1‑100 (MQ=255)
                                                                   tAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCg                           >  2:285247/1‑100 (MQ=255)
                                                                    aGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTTGCCGTCgg                          >  2:1776955/1‑100 (MQ=255)
                                                                    aGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCgg                          <  1:1553438/100‑1 (MQ=255)
                                                                    aGTGACTTATTCTAATTATGTTTATAAAGTCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATCTGTTATTGATGTTGGCACTACTCgcgtcctccgg                          >  2:1725536/1‑90 (MQ=255)
                                                                     gTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGt                         >  1:857548/1‑100 (MQ=255)
                                                                      tGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTc                        <  2:102119/100‑1 (MQ=255)
                                                                       gACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTTGTGGCCGTCGGTCa                       >  1:2615811/1‑100 (MQ=255)
                                                                       gACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCa                       >  1:1140594/1‑100 (MQ=255)
                                                                       gACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCa                       >  1:3567871/1‑100 (MQ=255)
                                                                       gACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCa                       >  2:3927459/1‑100 (MQ=255)
                                                                        aCTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAg                      <  1:986640/100‑1 (MQ=255)
                                                                          ttATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGAt                    >  2:3439262/1‑100 (MQ=255)
                                                                          ttATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGAt                    >  2:3260180/1‑100 (MQ=255)
                                                                            aTTCTAATTATTTTTATAAAGGCATCCGTGATAATGTAAAGGCAATGAAACGTCAATTTGTTATTGATGTTGGTATTACTAGTGGCCGTCGGTCAGATgg                  >  2:2636578/1‑100 (MQ=255)
                                                                            aTTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGAGGTTGGAATTACTCGTGGCCGTCGGTCAGATg                   >  1:3640118/1‑99 (MQ=255)
                                                                             ttCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGgc                 <  2:2391418/100‑1 (MQ=255)
                                                                             tgcTAATGATTTTTATAAAGTGATCCGTGATAAGGAAAAGGCAAAGATGCGTGAATTTGTGATTGATGATGGTATTACACGTGGCCGTCGGTCAGATg                   >  2:836354/3‑98 (MQ=255)
                                                                               cTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGgcgc               <  2:1034061/100‑1 (MQ=255)
                                                                               cTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGgcgc               >  1:1844922/1‑100 (MQ=255)
                                                                                   ttattTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAAc           <  1:1208573/100‑1 (MQ=255)
                                                                                    tattTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAAcc          <  2:3909209/100‑1 (MQ=255)
                                                                                     attTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGATACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCa         >  2:1170900/1‑100 (MQ=255)
                                                                                     attTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCa         >  2:1309301/1‑100 (MQ=255)
                                                                                     attTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCa         <  1:2113810/100‑1 (MQ=255)
                                                                                      ttttttttAATGCATTCGTGATAATGAAAAGGTAAAGAAACGTCAATTTGTTATTGATGTTGGTATTAATCTTAGCCGTCGGTTAGATGGCTCAAACCAt        >  2:4076223/1‑100 (MQ=255)
                                                                                      tttttATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGACCGTCGGTCAGATGGCGCAAACCAt        >  2:2346350/1‑100 (MQ=255)
                                                                                      tttctATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCAt        >  2:1655794/1‑100 (MQ=255)
                                                                                         ttATAAACGCATCTGTGATAATGAAAAGGCAAAGAAGCGTCAATTTGTTATTGATGTTGGAATTACTCGTGGCCGTCGGTCAGATTGCGCAAACCAttt      <  2:2575995/99‑1 (MQ=255)
                                                                                           ataAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTtata   <  1:2773021/100‑1 (MQ=255)
                                                                                            taAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTatat  >  2:540294/1‑100 (MQ=255)
                                                                                            taAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTatat  >  1:3779573/1‑100 (MQ=255)
                                                                                                |                                                                                               
TCCTGGCGTATATCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAAGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATAT  >  NC_000913/3853813‑3854004

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A