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 1,933,588 T→C 23.7% A285A (GCA→GCG)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,5880TC23.7% 190.4 / 61.3 111A285A (GCA→GCG) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base T (46/38);  new base C (13/13);  total (60/51)
Fisher's exact test for biased strand distribution p-value = 8.22e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01

Only 100 of 116 total aligned reads displayed.

TCTTACCGAGAATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGG  >  minE/1933518‑1933657
                                                                      |                                                                     
tCTTACCGAGAATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCt                                                                       <  1:1550941/71‑1 (MQ=255)
tCTTACCGAGAATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCt                                                                       <  1:4385361/71‑1 (MQ=255)
  ttACCGAGAATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGc                                                                     >  1:2824540/1‑71 (MQ=255)
        agaATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGc                                                               >  1:251775/1‑71 (MQ=255)
          aaTATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCa                                                             <  1:3865103/71‑1 (MQ=255)
          aaTATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCa                                                             >  1:5144597/1‑71 (MQ=255)
             atCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCt                                                                       <  1:1886964/58‑1 (MQ=255)
             atCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATg                                                           >  1:4320873/1‑70 (MQ=255)
              tCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATg                                                           >  1:3359077/1‑69 (MQ=255)
              tCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATg                                                           >  1:2809981/1‑69 (MQ=255)
              tCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTa                                                         <  1:4120994/71‑1 (MQ=255)
                cTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTag                                                        <  1:1164551/70‑1 (MQ=255)
                cTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTag                                                        <  1:2918867/70‑1 (MQ=255)
                cTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTag                                                        <  1:4458211/70‑1 (MQ=255)
                 tgtgCCAGGGTGCGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTagag                                                      >  1:489102/1‑71 (MQ=255)
                  gtgCCAGGGTGCGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGt                                                     >  1:2978081/1‑71 (MQ=255)
                  gtgCCAGGGTGCGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGt                                                     >  1:4180999/1‑71 (MQ=255)
                  gtgCCAGGGTGCGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGt                                                     >  1:2505897/1‑71 (MQ=255)
                     ccAGGGTGCGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTc                                                   <  1:2002871/70‑1 (MQ=255)
                       agagTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCa                                                             >  1:4668741/1‑58 (MQ=255)
                       agagTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCa                                                             >  1:4795297/1‑58 (MQ=255)
                       agagTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcat                                                <  1:4582410/71‑1 (MQ=255)
                       agagTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcat                                                <  1:4214173/71‑1 (MQ=255)
                        gagTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcat                                                <  1:3095157/70‑1 (MQ=255)
                         agTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcatc                                               >  1:1944328/1‑70 (MQ=255)
                         agTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCAGCGTa                                                                  >  1:2250359/1‑51 (MQ=255)
                             cGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGt                                          <  1:4610910/71‑1 (MQ=255)
                             cGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGt                                          <  1:5607190/71‑1 (MQ=255)
                             cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                          >  1:3218272/1‑71 (MQ=255)
                             cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                          >  1:3174490/1‑71 (MQ=255)
                             cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                          >  1:3125452/1‑71 (MQ=255)
                              ggAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATtgtg                                         <  1:1453187/71‑1 (MQ=255)
                              ggAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTa                                                         <  1:4345748/55‑1 (MQ=255)
                               gAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATtgtg                                         <  1:3540865/70‑1 (MQ=255)
                               gAACAGTGACTCTGTCAGTTCAATCAAATCGTAGTAATCCGCATACGCCATGTAGAGTTCCATCATtgtg                                         <  1:207200/70‑1 (MQ=255)
                               gAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTg                                         >  1:4119688/1‑70 (MQ=255)
                                aaCAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGaa                                       <  1:655701/71‑1 (MQ=255)
                                 aCAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                          <  1:4098631/67‑1 (MQ=255)
                                  cAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAAct                                     <  1:4462152/71‑1 (MQ=255)
                                  cAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAAct                                     >  1:573568/1‑71 (MQ=255)
                                   aGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActc                                    >  1:3809577/1‑71 (MQ=255)
                                    gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                   >  1:5368644/1‑71 (MQ=255)
                                    gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                   >  1:3805927/1‑71 (MQ=255)
                                    gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                   >  1:2719605/1‑71 (MQ=255)
                                     cGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTg                                  >  1:4254158/1‑71 (MQ=255)
                                       aTTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTagag                                                      >  1:4052027/1‑49 (MQ=255)
                                       aTTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTagag                                                      >  1:3804555/1‑49 (MQ=255)
                                       aTTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTagag                                                      >  1:2781024/1‑49 (MQ=255)
                                       aTTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTagag                                                      >  1:2863214/1‑49 (MQ=255)
                                       aTTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTag                                                        <  1:1526961/47‑1 (MQ=255)
                                       aTTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTgg                                 >  1:1752748/1‑70 (MQ=255)
                                          cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATTGTGAAct                                     <  1:4907958/63‑1 (MQ=255)
                                          cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAAct                                     <  1:2997913/63‑1 (MQ=255)
                                          cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                             >  1:524734/1‑71 (MQ=255)
                                           tgTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTAt                            >  1:4743265/2‑71 (MQ=255)
                                            gTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATg                           <  1:658033/71‑1 (MQ=255)
                                            gTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATg                           <  1:3003014/71‑1 (MQ=255)
                                             tCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTc                                                   >  1:1794025/1‑46 (MQ=255)
                                             tCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCcatcatt                                            <  1:4831082/53‑2 (MQ=255)
                                             tCAGTTCAATCAAATAGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTa                             <  1:3702415/68‑1 (MQ=255)
                                             tCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGtt                              <  1:4874424/67‑1 (MQ=255)
                                               aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                        >  1:1337695/1‑71 (MQ=255)
                                               aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                        >  1:2144389/1‑71 (MQ=255)
                                               aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                        >  1:1631772/1‑71 (MQ=255)
                                                  tCGATCAGATCTTTGTAATCTGCGTAAGCCATGTa                                                         >  1:168352/1‑35 (MQ=255)
                                                   cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                   <  1:249314/56‑1 (MQ=255)
                                                   cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                   <  1:3499983/56‑1 (MQ=255)
                                                   cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                   <  1:290926/56‑1 (MQ=255)
                                                   cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTggg                                >  1:4682924/1‑59 (MQ=255)
                                                   cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCAATCATGGTGAACTCTggg                                >  1:2521287/1‑59 (MQ=255)
                                                    gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTAc                     <  1:2618209/69‑1 (MQ=255)
                                                    gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTAc                     <  1:4813837/69‑1 (MQ=255)
                                                     aTCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATgg                                           <  1:3696514/46‑1 (MQ=255)
                                                     aTCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATgg                                           <  1:3918940/46‑1 (MQ=255)
                                                      taaGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                  <  1:2749264/68‑1 (MQ=255)
                                                      tCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCcatcat                                             <  1:3926212/43‑1 (MQ=255)
                                                      tCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                  >  1:5617105/1‑70 (MQ=255)
                                                        aGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                >  1:4235832/1‑70 (MQ=255)
                                                          aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcat                                                <  1:4623723/36‑1 (MQ=255)
                                                          aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcat                                                <  1:5137049/36‑1 (MQ=255)
                                                          aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGaa                                       <  1:1727524/45‑1 (MQ=255)
                                                            cTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                    >  1:3107546/1‑62 (MQ=255)
                                                             tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                        <  1:5237807/57‑1 (MQ=255)
                                                             tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                        <  1:1190534/57‑1 (MQ=255)
                                                             gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt          >  1:5217119/4‑71 (MQ=255)
                                                             gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt          >  1:2696559/4‑71 (MQ=255)
                                                              ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                             >  1:110065/1‑51 (MQ=255)
                                                               tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTg                                         <  1:70909/38‑1 (MQ=255)
                                                               tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTg                                         <  1:1784391/38‑1 (MQ=255)
                                                               tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTa                      >  1:4402170/1‑57 (MQ=255)
                                                               tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc         <  1:281655/70‑1 (MQ=255)
                                                               tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCg        >  1:4408375/1‑71 (MQ=255)
                                                                gTAATCTGCGTAAGCCATGTAGAGTTCCATCATgg                                           >  1:4041909/1‑35 (MQ=255)
                                                                 tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                             >  1:3183721/1‑48 (MQ=255)
                                                                 tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                        >  1:3072758/1‑53 (MQ=255)
                                                                 tAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTca        <  1:2503967/69‑2 (MQ=255)
                                                                 tAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTca        <  1:4238562/69‑2 (MQ=255)
                                                                   aTCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                >  1:3950377/1‑59 (MQ=255)
                                                                   aTCCGCATACGCCATGTAGAGTTACATCATTGTGAACTCAGGATTATGGCGAACAGaa                 >  1:4041847/1‑58 (MQ=255)
                                                                      tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg  >  1:46491/1‑70 (MQ=255)
                                                                      |                                                                     
TCTTACCGAGAATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGG  >  minE/1933518‑1933657

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A