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 F1 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,933,615 G→T 26.9% T276T (ACC→ACA)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,6150GT26.9% 328.0 / 92.8 163T276T (ACC→ACA) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (65/54);  new base T (17/27);  total (82/81)
Fisher's exact test for biased strand distribution p-value = 7.95e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.99e-01

Only 100 of 174 total aligned reads displayed.

TACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACG  >  minE/1933545‑1933683
                                                                      |                                                                    
tACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATg                                                                      <  1:3973897/71‑1 (MQ=255)
  cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                                                    >  1:3125452/1‑71 (MQ=255)
  cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                                                    >  1:3218272/1‑71 (MQ=255)
   ggAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATtgtg                                                                   <  1:2298891/71‑1 (MQ=255)
   ggAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATtgtg                                                                   <  1:1453187/71‑1 (MQ=255)
   ggAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTg                                                                   <  1:1628587/71‑1 (MQ=255)
    gAACAGTGACTCTGTCAGTTCAATCAAATCGTAGTAATCCGCATACGCCATGTAGAGTTCCATCATtgtg                                                                   <  1:207200/70‑1 (MQ=255)
    gAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTg                                                                   >  1:4119688/1‑70 (MQ=255)
     aaCAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGaa                                                                 >  1:4333181/1‑71 (MQ=255)
       cAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAAct                                                               <  1:4462152/71‑1 (MQ=255)
       cAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAAct                                                               >  1:573568/1‑71 (MQ=255)
        aGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActc                                                              >  1:3809577/1‑71 (MQ=255)
         gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                                             >  1:2719605/1‑71 (MQ=255)
         gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                                             >  1:5368644/1‑71 (MQ=255)
         gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActc                                                              >  1:4926756/1‑70 (MQ=255)
          cGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTg                                                            >  1:4254158/1‑71 (MQ=255)
                tgTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTAt                                                      >  1:4743265/2‑71 (MQ=255)
                 gTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATg                                                     <  1:658033/71‑1 (MQ=255)
                 gTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATg                                                     <  1:3003014/71‑1 (MQ=255)
                    aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                  >  1:1631772/1‑71 (MQ=255)
                        cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                                             <  1:290926/56‑1 (MQ=255)
                        cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                                             <  1:249314/56‑1 (MQ=255)
                        cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                              >  1:5580556/1‑71 (MQ=255)
                         gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTAc                                               <  1:4813837/69‑1 (MQ=255)
                          aTCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATgg                                                                     <  1:3696514/46‑1 (MQ=255)
                           tCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                            >  1:5617105/1‑70 (MQ=255)
                             aGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                          >  1:4235832/1‑70 (MQ=255)
                               aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGaa                                                                 <  1:1727524/45‑1 (MQ=255)
                                  tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                  <  1:5237807/57‑1 (MQ=255)
                                  gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt                                    >  1:4159908/4‑71 (MQ=255)
                                  gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt                                    >  1:2696559/4‑71 (MQ=255)
                                  gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt                                    >  1:5217119/4‑71 (MQ=255)
                                    tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTg                                                                   <  1:70909/38‑1 (MQ=255)
                                    tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTa                                                >  1:4402170/1‑57 (MQ=255)
                                    tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                    <  1:2841/69‑1 (MQ=255)
                                    tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCt                                     <  1:4508666/68‑1 (MQ=255)
                                     gTAATCTGCGTAAGCCATGTAGAGTTCCATCATgg                                                                     >  1:1801738/1‑35 (MQ=255)
                                      tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                       >  1:3183721/1‑48 (MQ=255)
                                      tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                  >  1:3072758/1‑53 (MQ=255)
                                      tAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTca                                  <  1:2503967/69‑2 (MQ=255)
                                        aTCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                          >  1:3950377/1‑59 (MQ=255)
                                        aTCCGCATACGCCATGTAGAGTTACATCATTGTGAACTCAGGATTATGGCGAACAGaa                                           >  1:4041847/1‑58 (MQ=255)
                                           tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                            >  1:46491/1‑70 (MQ=255)
                                               tacgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGtt                       <  1:4557750/68‑1 (MQ=255)
                                                acgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                            <  1:850492/47‑1 (MQ=255)
                                                aaGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGt                        <  1:5298862/69‑1 (MQ=255)
                                                aaGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                      >  1:2642069/1‑71 (MQ=255)
                                                 cgCCATGTAGAGTTCCATCATTGTTAACTCAGGATTATTGCGAACAGAAATACCTTCATTACTGAAGTTa                      <  1:5536968/69‑1 (MQ=255)
                                                 cgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTa                      <  1:1962743/69‑1 (MQ=255)
                                                 aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATa                                        >  1:1555754/1‑52 (MQ=255)
                                                 aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                      <  1:125228/70‑1 (MQ=255)
                                                 aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                     <  1:166163/71‑1 (MQ=255)
                                                 aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                     <  1:2409599/71‑1 (MQ=255)
                                                 aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                     <  1:1531389/71‑1 (MQ=255)
                                                 aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                     >  1:4836025/1‑71 (MQ=255)
                                                 aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                     <  1:2954998/71‑1 (MQ=255)
                                                 aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                     <  1:489138/71‑1 (MQ=255)
                                                  gCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                    <  1:1362355/71‑1 (MQ=255)
                                                  gCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                    >  1:1069434/1‑71 (MQ=255)
                                                   ccATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACgg                   >  1:886767/1‑71 (MQ=255)
                                                    cATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGtt                       <  1:3032491/66‑1 (MQ=255)
                                                     aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                 <  1:1890924/71‑1 (MQ=255)
                                                     aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                 <  1:4256620/71‑1 (MQ=255)
                                                     aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                 <  1:3501760/71‑1 (MQ=255)
                                                      tGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTa                               >  1:3725946/1‑56 (MQ=255)
                                                       gTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                          <  1:2916993/44‑1 (MQ=16)
                                                       gTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                          <  1:4776305/44‑1 (MQ=16)
                                                       gTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                            <  1:3789488/42‑1 (MQ=16)
                                                       gTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                          >  1:5561247/1‑44 (MQ=255)
                                                        tAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAt              <  1:4017126/71‑1 (MQ=255)
                                                        tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                          >  1:4208479/1‑43 (MQ=255)
                                                        tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATAcc                                      <  1:650793/47‑1 (MQ=255)
                                                        tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTg                >  1:3513224/1‑69 (MQ=255)
                                                        tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa               <  1:4059263/70‑1 (MQ=255)
                                                        tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa               <  1:1783731/70‑1 (MQ=255)
                                                        tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa               <  1:3602202/70‑1 (MQ=255)
                                                        tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt              >  1:3599301/1‑71 (MQ=255)
                                                        tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt              >  1:176459/1‑71 (MQ=255)
                                                         agagTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAt              <  1:1984488/70‑1 (MQ=255)
                                                          gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                    >  1:1417008/1‑47 (MQ=255)
                                                          gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCt                                     >  1:5110416/1‑46 (MQ=255)
                                                            gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg          <  1:3627925/71‑1 (MQ=255)
                                                            gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg          <  1:3840340/71‑1 (MQ=255)
                                                              tCCATCATGGTGAACTATGGGTTATGACGTACGGAAATACCTTCGtt                                <  1:725456/47‑1 (MQ=255)
                                                               ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                          >  1:1003256/1‑52 (MQ=255)
                                                               ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                          >  1:4123391/1‑52 (MQ=255)
                                                               ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa               >  1:3729672/1‑63 (MQ=255)
                                                               ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAttt            >  1:2290000/1‑66 (MQ=255)
                                                               ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAttt            >  1:1314845/1‑66 (MQ=255)
                                                               ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATAACTTCGTTACGGaa                          >  1:4739015/1‑52 (MQ=255)
                                                                catcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGtt                 <  1:1451763/60‑1 (MQ=255)
                                                                catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa               <  1:5653391/62‑1 (MQ=255)
                                                                 atcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAt              <  1:5451050/62‑1 (MQ=255)
                                                                  tcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGa               >  1:774495/1‑60 (MQ=255)
                                                                  tcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATacc    >  1:2523856/1‑70 (MQ=255)
                                                                  tcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt              <  1:2115306/61‑1 (MQ=255)
                                                                  tcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt              <  1:1116171/61‑1 (MQ=255)
                                                                   catGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATacac   >  1:336618/1‑71 (MQ=255)
                                                                    atGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACg  >  1:5339757/1‑71 (MQ=255)
                                                                      ggTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGa         <  1:2793424/62‑1 (MQ=255)
                                                                      |                                                                    
TACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACG  >  minE/1933545‑1933683

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