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
A6 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,933,165 G→A 13.0% G426G (GGC→GGT)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,1650GA13.0% 263.5 / 24.9 100G426G (GGC→GGT) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (49/38);  new base A (11/2);  total (60/40)
Fisher's exact test for biased strand distribution p-value = 6.96e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.64e-01

Only 100 of 104 total aligned reads displayed.

CTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGT  >  minE/1933095‑1933232
                                                                      |                                                                   
cTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                                     >  1:1897727/1‑71 (MQ=255)
  gCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc                                                                   >  1:2650001/1‑71 (MQ=255)
  gCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGc                                                                    >  1:1698278/1‑70 (MQ=255)
    gTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                                                                 <  1:2317057/71‑1 (MQ=255)
     tCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGtt                                                                <  1:3289036/71‑1 (MQ=255)
      cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGtt                                                                <  1:2592423/70‑1 (MQ=255)
      cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                                                               >  1:242409/1‑71 (MQ=255)
        ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                             >  1:313799/1‑71 (MQ=255)
         tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                             <  1:1573752/70‑1 (MQ=255)
         tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                                                              <  1:3486576/69‑1 (MQ=255)
          cgcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGa                                                           >  1:1126789/1‑71 (MQ=255)
           gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                                          >  1:2037557/1‑71 (MQ=255)
             ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAtt                                                         <  1:403066/70‑1 (MQ=255)
              gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTc                                                       <  1:2295148/71‑1 (MQ=255)
               taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCa                                                      >  1:1499791/2‑71 (MQ=255)
               cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                                     <  1:1790523/56‑1 (MQ=255)
               cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                                     <  1:3034267/56‑1 (MQ=255)
                aaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAAcca                                                                  >  1:1929449/1‑57 (MQ=255)
                 aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                                     <  1:2360341/54‑1 (MQ=255)
                 aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACg                                                    <  1:573730/71‑1 (MQ=255)
                   cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac                                                  <  1:1682021/71‑1 (MQ=255)
                    tGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                                        <  1:458023/64‑1 (MQ=255)
                     gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                                >  1:3153879/1‑71 (MQ=255)
                     gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                                >  1:1219652/1‑71 (MQ=255)
                      ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac                                               >  1:1321896/2‑71 (MQ=255)
                      ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGa                                                   >  1:1303462/2‑67 (MQ=255)
                      ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGa                                                   >  1:1094129/2‑67 (MQ=255)
                      aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac                                               >  1:1386299/1‑71 (MQ=255)
                      aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacc                                                 <  1:3179727/69‑1 (MQ=255)
                      aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacc                                                 <  1:1249779/69‑1 (MQ=255)
                       tCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                              >  1:433552/1‑71 (MQ=255)
                       tCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                              >  1:438114/1‑71 (MQ=255)
                       tCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac                                               >  1:1477415/1‑70 (MQ=255)
                       tCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCg                                                            >  1:1966535/1‑57 (MQ=255)
                       tCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac                                               >  1:3856698/1‑70 (MQ=255)
                        ccAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccacc                                              >  1:222669/1‑70 (MQ=255)
                        ccAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                                >  1:2677720/1‑68 (MQ=255)
                         cAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGa                                                   >  1:2628038/1‑64 (MQ=255)
                          aGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                                           >  1:1174807/1‑71 (MQ=255)
                             aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                                >  1:2579610/1‑63 (MQ=255)
                             aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                                >  1:2291577/1‑63 (MQ=255)
                             aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                          >  1:2422718/1‑69 (MQ=255)
                              aGCGTTGCGCCTGATCTTCCGCGTCATTTAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                                       <  1:3100201/71‑1 (MQ=255)
                              aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                                       <  1:588970/71‑1 (MQ=255)
                              aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                          >  1:2028881/1‑68 (MQ=255)
                              aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                          >  1:811197/1‑68 (MQ=255)
                              aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                          >  1:2820078/1‑68 (MQ=255)
                                 gTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATga                                         <  1:1899667/66‑1 (MQ=255)
                                  ttGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACt                                   <  1:2981290/71‑1 (MQ=255)
                                    gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGa                                                           >  1:1412504/1‑45 (MQ=255)
                                    gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                                  >  1:1515216/1‑70 (MQ=255)
                                    gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                                  >  1:2710334/1‑70 (MQ=255)
                                    cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGa                                                           >  1:396237/3‑45 (MQ=255)
                                     cgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCaa                                <  1:3357953/71‑1 (MQ=255)
                                        cTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                          <  1:2190432/58‑1 (MQ=255)
                                         tGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACg                            >  1:2342460/1‑71 (MQ=255)
                                         tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                          <  1:3537468/57‑1 (MQ=255)
                                         tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                                  <  1:969005/65‑1 (MQ=255)
                                         tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCg                            >  1:1873221/1‑71 (MQ=255)
                                          gATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACTACCAATGAAGAACTCAAAGCgg                           >  1:3859767/1‑71 (MQ=255)
                                          gATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCaaa                               <  1:3848389/67‑1 (MQ=255)
                                          gATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCgg                           >  1:3929879/1‑71 (MQ=255)
                                           aTCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCgg                           >  1:1730122/1‑70 (MQ=255)
                                            tCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTc                         >  1:3757949/1‑71 (MQ=255)
                                              ttCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaaga                                      >  1:569602/1‑56 (MQ=255)
                                              ttCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt                        >  1:1161900/1‑70 (MQ=255)
                                               tCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt                      >  1:3914162/1‑71 (MQ=255)
                                               tCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt                      >  1:3499349/1‑71 (MQ=255)
                                                ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt                      >  1:2034309/1‑70 (MQ=255)
                                                ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtg                       <  1:1455201/69‑1 (MQ=255)
                                                ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtg                       <  1:1450719/69‑1 (MQ=255)
                                                   cgTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGAtt                  <  1:2907455/71‑1 (MQ=255)
                                                       aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCaaa                               >  1:836713/1‑54 (MQ=255)
                                                       aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTcc               <  1:1689755/70‑1 (MQ=255)
                                                       aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTcc               <  1:2887362/70‑1 (MQ=255)
                                                       aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACAACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCg              <  1:703898/71‑1 (MQ=255)
                                                        ttCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt                        <  1:191498/60‑1 (MQ=255)
                                                         tCAGCTCGCTAAAGCCGTTACCGATTTCACGAccacca                                             >  1:1118770/1‑38 (MQ=255)
                                                         tCAGCTCGCTAAAGCCGTTACCGATTTCACGAccacca                                             >  1:3274912/1‑38 (MQ=255)
                                                         tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCggg            >  1:2238909/1‑71 (MQ=255)
                                                         tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCggg            >  1:2316328/1‑71 (MQ=255)
                                                         tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCgg             >  1:2220784/1‑70 (MQ=255)
                                                          cAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt           >  1:3167449/1‑71 (MQ=255)
                                                          aaGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt           >  1:3550012/2‑71 (MQ=255)
                                                           aGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt           <  1:3040635/70‑1 (MQ=255)
                                                            gCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTa         <  1:2474462/71‑1 (MQ=255)
                                                             ttCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGtt          <  1:3888445/68‑1 (MQ=255)
                                                             cTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg                     <  1:2149629/58‑1 (MQ=255)
                                                             cTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg                     <  1:2049958/58‑1 (MQ=255)
                                                              tCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAc       >  1:3572752/1‑71 (MQ=255)
                                                              tCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTaa        >  1:488429/1‑70 (MQ=255)
                                                               cGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGAt                   >  1:229169/1‑58 (MQ=255)
                                                               cGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcg      >  1:1839803/1‑71 (MQ=255)
                                                                gCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcg      <  1:313528/70‑1 (MQ=255)
                                                                 cTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGt                          <  1:1599480/49‑1 (MQ=255)
                                                                 cTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtc    <  1:2897852/71‑1 (MQ=255)
                                                                  tAAAGCCGTTACCGATTTCACGACCACCAATgaag                                       <  1:829082/35‑1 (MQ=255)
                                                                  tAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtcg   >  1:1676638/1‑71 (MQ=255)
                                                                   aaaGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt                        >  1:199218/1‑49 (MQ=255)
                                                                    aaGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtcgt  <  1:770120/70‑1 (MQ=255)
                                                                      |                                                                   
CTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGT  >  minE/1933095‑1933232

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A