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 2,571,338 T→G 30.5% intergenic (+106/‑1673) yibH → / → ysaB hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,571,3380TG30.5% 133.2 / 129.9 141intergenic (+106/‑1673)yibH/ysaBhypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (39/59);  new base G (21/22);  total (60/81)
Fisher's exact test for biased strand distribution p-value = 3.58e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.43e-01

Only 100 of 156 total aligned reads displayed.

CTAATTATTTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATA  >  minE/2571274‑2571406
                                                                 |                                                                      
cTAATTATTTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTc                                                                  >  1:901165/1‑71 (MQ=255)
  aaTTATTTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑g                                                              >  1:2212674/1‑71 (MQ=255)
   attattTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTtaat                                                                        <  1:1100764/62‑1 (MQ=255)
   attattTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑g                                                              >  1:3597404/1‑70 (MQ=255)
   attattTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑g                                                              <  1:4295718/70‑1 (MQ=255)
    ttattTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGt                                                                    <  1:4140373/65‑1 (MQ=255)
    ttattTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGt                                                                    <  1:1623633/65‑1 (MQ=255)
     tattTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGAt                                                           >  1:1101002/1‑71 (MQ=255)
      attTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGAt                                                           >  1:2657581/1‑70 (MQ=255)
      attTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGAt                                                           >  1:2151432/1‑70 (MQ=255)
       tttttGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGAt                                                           >  1:3723745/1‑69 (MQ=255)
            gCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGtgtg                                                    >  1:764500/1‑71 (MQ=255)
               tatTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGctc                                                 >  1:2352113/1‑71 (MQ=255)
                atTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑g                                                              <  1:3364244/57‑1 (MQ=255)
                atTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑g                                                              <  1:3553326/57‑1 (MQ=255)
                atTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGa                                                            >  1:4371958/1‑59 (MQ=255)
                atTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGa                                                            >  1:4377557/1‑59 (MQ=255)
                atTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGctct                                                >  1:4021442/1‑71 (MQ=255)
                 ttACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTtaataa                                                                      >  1:4959213/1‑50 (MQ=255)
                    cTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTTTGTTAATAAGTTc                                                                  <  1:687733/51‑1 (MQ=255)
                    cTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTc                                                                  <  1:4607018/51‑1 (MQ=255)
                     ttCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGt                                                                    <  1:5675227/48‑1 (MQ=255)
                     ttCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑g                                                              <  1:284437/52‑1 (MQ=255)
                     ttCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑g                                                              <  1:692641/52‑1 (MQ=255)
                     ttCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATg                                                          <  1:5365132/56‑1 (MQ=255)
                       cATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGa                                                         <  1:1926925/55‑1 (MQ=255)
                        aTTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGAt                                        <  1:327776/71‑1 (MQ=255)
                         ttAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGAt                                                           >  1:1240828/1‑51 (MQ=255)
                          tAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGTAtt                                       <  1:225473/70‑1 (MQ=255)
                           aGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGAttt                                      <  1:2451652/70‑1 (MQ=255)
                              ttCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGa                                                         >  1:4025417/1‑48 (MQ=255)
                                tgatgatTTTTCCTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGAtttctt                                   <  1:4252406/69‑1 (MQ=255)
                                tgatgatTTTTCCTTTAATATCCAGCATGTTAAGAAGTTC‑t                                                                <  1:4702250/40‑1 (MQ=12)
                                tgatgatTTTTCCTTTAATATCCAGCATGTTAAGAAGTTC‑T‑gg                                                             <  1:4008848/42‑1 (MQ=16)
                                cGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑t                                                                >  1:3069491/1‑40 (MQ=255)
                                cGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑t                                                                >  1:4491163/1‑40 (MQ=255)
                                 gatgatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATcc                               <  1:1022779/71‑1 (MQ=255)
                                  atgatTTTTCCTTTAATATCCAGCATGTTaagaag                                                                     >  1:4082362/1‑35 (MQ=9)
                                  atgatTTTTCCTTTAATATCCAGCATGTTaagaag                                                                     >  1:1241167/1‑35 (MQ=9)
                                  atgatTTTTCCTTTAATATCCAGCATGTTAAGAAGTTc                                                                  <  1:3842416/38‑1 (MQ=12)
                                  atgatTTTTCCTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATc                                >  1:3425292/1‑71 (MQ=255)
                                  atgatTTTTCCTTTAATATCCAGCATGTTAAGAAGTTC‑T‑gg                                                             >  1:1356806/1‑41 (MQ=16)
                                  atgatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCAtt                                            <  1:1042987/57‑1 (MQ=255)
                                    gatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑g                                                              >  1:4875433/1‑37 (MQ=255)
                                    gatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATcc                               <  1:3671395/68‑1 (MQ=255)
                                    gatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTc                            >  1:3264253/1‑71 (MQ=255)
                                    gatTTTA‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTc                            >  1:734041/1‑71 (MQ=255)
                                    gatATTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑g                                                              >  1:5530527/1‑37 (MQ=255)
                                      ttttt‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGtgtg                                                    <  1:1745162/45‑1 (MQ=255)
                                      ttttt‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCtt                          <  1:119029/71‑1 (MQ=255)
                                       tttc‑CTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCt                           >  1:1847902/1‑70 (MQ=255)
                                        ttt‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑CGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGt                        >  1:5527992/1‑71 (MQ=255)
                                         ttccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCtt                          <  1:1754179/67‑1 (MQ=255)
                                         tt‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTa                                  >  1:2233766/1‑60 (MQ=255)
                                          tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                         <  1:2353435/68‑1 (MQ=255)
                                          tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                         <  1:2989061/68‑1 (MQ=255)
                                          tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                         <  1:5635651/68‑1 (MQ=255)
                                          tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                         <  1:2033084/68‑1 (MQ=255)
                                          tccTTTAATATCCAGCATGTTAAGAAGTTC‑TGGGATAGCTGTAATCTCATTAGATTTCTCATCCGTCTTg                         <  1:2759612/68‑1 (MQ=255)
                                          tccTTTAATATCCAGCATGTTAAGAAGTTC‑TGGGATAGCTGTAATCTCATTAGATTTCTCATCCGTCTTg                         <  1:4254032/68‑1 (MQ=255)
                                          tccTTTAATATCCAGCATGTTAAGAAGTTC‑TGGGATAGCTGTAATCTCATTAGATTTCTCATCCGTCTTg                         <  1:1522883/68‑1 (MQ=255)
                                          tccTTTAATATCCAGCATGTTAAGAAGTTC‑TGGGATAGCTGTAATCTCATTAGATTTCTCATCCGTCTTg                         <  1:4309757/68‑1 (MQ=255)
                                            cTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGtt                       <  1:5031128/69‑1 (MQ=255)
                                            cTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                     >  1:4191709/1‑71 (MQ=255)
                                            cTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATc                      >  1:4842888/1‑71 (MQ=255)
                                            cTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATc                      >  1:1524999/1‑71 (MQ=255)
                                             tttAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                         <  1:5480766/67‑1 (MQ=255)
                                               tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTa                                  >  1:4814237/1‑56 (MQ=255)
                                               tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCt                     >  1:3759709/1‑69 (MQ=255)
                                               tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTgt                   >  1:5697330/1‑70 (MQ=255)
                                               tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTGc                   >  1:3672754/1‑71 (MQ=255)
                                               tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTGc                   >  1:4743825/1‑71 (MQ=255)
                                               tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTGc                   >  1:2674080/1‑71 (MQ=255)
                                                aaTATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                     <  1:2164482/67‑1 (MQ=255)
                                                 atatTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCg                 <  1:1877765/70‑1 (MQ=255)
                                                    ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATc                                >  1:5095556/1‑52 (MQ=255)
                                                    ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                     <  1:1611576/63‑1 (MQ=255)
                                                    ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                     <  1:2512567/63‑1 (MQ=255)
                                                    ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                     <  1:1716614/63‑1 (MQ=255)
                                                    ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAgt             <  1:5305193/71‑2 (MQ=255)
                                                    ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAg              <  1:3328060/70‑1 (MQ=255)
                                                    ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAg              <  1:1175257/70‑1 (MQ=255)
                                                      cATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGAt           >  1:1549294/1‑71 (MQ=255)
                                                      cATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGAt           >  1:2803109/1‑71 (MQ=255)
                                                       agcaTGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATc                      >  1:5207379/4‑60 (MQ=255)
                                                       aTTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATcc                               >  1:482338/1‑50 (MQ=255)
                                                       aTTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATg          <  1:4985725/71‑1 (MQ=255)
                                                       aTTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTATATCCGTCTTGTTCTGCCGCAGGAt           <  1:5026670/70‑1 (MQ=255)
                                                        ttATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTa                                  <  1:398453/46‑1 (MQ=255)
                                                        ttATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGtt                       <  1:4167997/57‑1 (MQ=255)
                                                         tATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGAt           >  1:5231582/1‑68 (MQ=255)
                                                           tGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGAc      <  1:4784700/71‑1 (MQ=255)
                                                           tGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                         <  1:4290170/53‑1 (MQ=255)
                                                             ttAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACt     <  1:596909/70‑1 (MQ=255)
                                                              taataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTg                    >  1:4514969/1‑54 (MQ=255)
                                                              taataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACta    >  1:4223154/1‑70 (MQ=255)
                                                                ataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCg                              <  1:4732441/42‑1 (MQ=255)
                                                                ataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGt                        <  1:4440026/48‑1 (MQ=255)
                                                                ataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACtata  <  1:4326404/70‑1 (MQ=255)
                                                                ataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACtata  >  1:2060905/1‑70 (MQ=255)
                                                                 |                                                                      
CTAATTATTTTTGCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATA  >  minE/2571274‑2571406

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