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 1,933,708 C→T 32.9% K245K (AAG→AAA)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,7080CT32.9% 145.4 / 101.4 125K245K (AAG→AAA) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base C (41/42);  new base T (29/12);  total (70/55)
Fisher's exact test for biased strand distribution p-value = 3.38e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.31e-01

Only 100 of 127 total aligned reads displayed.

GAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAAC  >  minE/1933640‑1933777
                                                                    |                                                                     
gAAATACCTTCATTACGGAAGTTATGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGttt                                                                     >  1:3821128/1‑71 (MQ=255)
 aaaTACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTg                                                                    <  1:4666974/71‑1 (MQ=255)
  aaTACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGa                                                                   <  1:2298181/71‑1 (MQ=255)
   aTACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGttt                                                                     >  1:5186520/1‑68 (MQ=255)
    tACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAga                                                                 <  1:5118977/71‑2 (MQ=255)
    tACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAga                                                                 <  1:260610/71‑2 (MQ=255)
      ccTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa                                                               <  1:4856855/71‑1 (MQ=255)
       cTTCGTTACGGAAGTTTCGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTAc                                                              <  1:3647018/71‑1 (MQ=255)
       cTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTAc                                                              <  1:187276/71‑1 (MQ=255)
        ttCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTa                                                               >  1:604968/1‑69 (MQ=255)
        ttCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa                                                               >  1:2430177/1‑69 (MQ=255)
          cattACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAgc                                                           >  1:4430100/3‑70 (MQ=255)
          cGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAgg                                                                 >  1:1963701/1‑65 (MQ=255)
           attACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAgg                                                           <  1:5207271/69‑2 (MQ=255)
           attACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAgc                                                           <  1:1080444/69‑2 (MQ=255)
           attACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAgc                                                           <  1:2252117/69‑2 (MQ=255)
           attACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTA‑AACCAGACGTTTCAGATACAGCTc                                                         >  1:2459265/2‑71 (MQ=255)
              aCGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTcc                                                        >  1:5351536/1‑70 (MQ=255)
              aCGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTcc                                                        <  1:2260078/70‑1 (MQ=255)
              aCGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCg                                                       >  1:3371058/1‑71 (MQ=255)
                  aaGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa                                                               >  1:5596705/1‑59 (MQ=255)
                  aaGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa                                                               >  1:917003/1‑59 (MQ=255)
                  aaGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa                                                               >  1:4202604/1‑59 (MQ=255)
                  aaGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa                                                               >  1:2971219/1‑59 (MQ=255)
                  aaGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa                                                               >  1:5252360/1‑59 (MQ=255)
                  aaGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAg                                                            >  1:1566166/1‑62 (MQ=255)
                  aaGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcgc                                                   <  1:2875600/71‑1 (MQ=255)
                  aaGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcgc                                                   <  1:288199/71‑1 (MQ=255)
                  aaGTTACGGTTGATTTCGAATACACGCTCGAAGCCA‑CAACCACCAGACGCTTGAGGTACAg                                                            >  1:1682360/1‑61 (MQ=255)
                    gTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGa                                                 <  1:4795269/71‑1 (MQ=255)
                    gTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCtt                                                                     <  1:3189958/51‑1 (MQ=255)
                    gTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCtt                                                                     <  1:3097117/51‑1 (MQ=255)
                    gTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCtt                                                                     <  1:4129044/51‑1 (MQ=255)
                      tACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATa                                               >  1:2469760/1‑71 (MQ=255)
                       aCGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATa                                               >  1:4185953/1‑70 (MQ=255)
                       aCGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATAc                                              >  1:4862806/1‑71 (MQ=255)
                       aCGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcgc                                                   >  1:5387034/1‑66 (MQ=255)
                        cGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACg                                             >  1:4656395/1‑71 (MQ=255)
                         ggTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACG‑TTCAGATACAGCTCCGGCGCGATACGCa                                           <  1:201603/71‑1 (MQ=255)
                         ggTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGc                                            <  1:3931902/71‑1 (MQ=255)
                         ggTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGc                                            <  1:3248809/71‑1 (MQ=255)
                         ggTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGc                                            <  1:1084355/71‑1 (MQ=255)
                           ttGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCa                                           <  1:665385/70‑1 (MQ=255)
                           ttGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAg                                          >  1:3631369/1‑71 (MQ=255)
                              aTTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATa                                       <  1:4404712/71‑1 (MQ=255)
                                ttCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACa                                     >  1:2757169/1‑71 (MQ=255)
                                 tCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACa                                     >  1:3019741/1‑70 (MQ=255)
                                 tCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACa                                     >  1:490592/1‑70 (MQ=255)
                                 tCGAATACACGCTCGAAGCCACCAACCACCAGACGCt                                                                      >  1:2582511/1‑37 (MQ=255)
                                      tACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTc                                 >  1:4741747/1‑69 (MQ=255)
                                        cacGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTc                                 >  1:5660354/1‑67 (MQ=255)
                                         acGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGAt                            <  1:2723919/71‑1 (MQ=255)
                                          cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTAc                                      >  1:1057842/1‑60 (MQ=255)
                                          cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTAc                                      >  1:1303601/1‑60 (MQ=255)
                                          cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTAc                                      >  1:2664894/1‑60 (MQ=255)
                                          cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTAc                                      >  1:2671457/1‑60 (MQ=255)
                                          cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCgaga                             <  1:3263218/69‑1 (MQ=255)
                                          cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATc                           <  1:5599401/71‑1 (MQ=255)
                                           gCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATcc                          <  1:3558803/71‑1 (MQ=255)
                                           gCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATcc                          <  1:925502/71‑1 (MQ=255)
                                            cTCGAAGCCACCAACCACCTGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCa                         <  1:2373747/71‑1 (MQ=255)
                                            cTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGc                                            >  1:1373156/1‑52 (MQ=255)
                                            cTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGc                                            >  1:2788999/1‑52 (MQ=255)
                                            cTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACaa                                    >  1:362631/1‑59 (MQ=255)
                                             tCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTc                                                         <  1:4190127/38‑1 (MQ=255)
                                              cGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACa                                     >  1:935990/1‑57 (MQ=255)
                                               gAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCg                                <  1:446745/61‑1 (MQ=255)
                                               gAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAg                        <  1:1307289/69‑1 (MQ=255)
                                                  gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                   <  1:530615/71‑1 (MQ=255)
                                                  gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                   <  1:5160679/71‑1 (MQ=255)
                                                  gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                   >  1:1466483/1‑71 (MQ=255)
                                                   ccaccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCga                               <  1:307660/58‑1 (MQ=255)
                                                     accaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt                >  1:2121995/1‑71 (MQ=255)
                                                     accaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt                <  1:1891689/71‑1 (MQ=255)
                                                       caaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtgg              <  1:5127902/71‑1 (MQ=255)
                                                       caaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATACAGCGCGTTAtgg              <  1:2083800/71‑1 (MQ=255)
                                                        aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGa                                                 >  1:5087035/1‑35 (MQ=255)
                                                        aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACg                                             <  1:4778200/39‑1 (MQ=255)
                                                        aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACg                                             <  1:1845592/39‑1 (MQ=255)
                                                        aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACg                                             <  1:149809/39‑1 (MQ=255)
                                                        aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAgc                       >  1:3788737/1‑61 (MQ=255)
                                                        aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAgc                       >  1:1710353/1‑61 (MQ=255)
                                                        aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggt             >  1:768292/1‑71 (MQ=255)
                                                         accaccAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtgg              >  1:1444606/1‑69 (MQ=255)
                                                         acaaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTatgatg            >  1:4321830/4‑71 (MQ=255)
                                                         acaaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTatgatg            >  1:4548195/4‑71 (MQ=255)
                                                          caaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTAtgatgg           >  1:1068133/3‑71 (MQ=255)
                                                           caccaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCga                               >  1:1355163/1‑50 (MQ=255)
                                                           aaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACa                                     >  1:287815/2‑44 (MQ=19)
                                                            accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACGTATCTAAATCCAGAGCATTATgatggg          >  1:3721280/1‑70 (MQ=255)
                                                            accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatgggt         <  1:2784532/71‑1 (MQ=255)
                                                            accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg          >  1:3398683/1‑70 (MQ=255)
                                                            accaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATggtgggt         >  1:5677978/1‑71 (MQ=255)
                                                             ccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatgggt         >  1:739177/1‑70 (MQ=255)
                                                             ccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg          >  1:4618509/1‑69 (MQ=255)
                                                              caGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGcgcg                    <  1:1430205/58‑1 (MQ=255)
                                                               aGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGa       >  1:1790977/1‑70 (MQ=255)
                                                                gACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATa     <  1:3421319/71‑1 (MQ=255)
                                                                   gCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAAc  >  1:5113055/1‑71 (MQ=255)
                                                                   gCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAAc  <  1:4374755/71‑1 (MQ=255)
                                                                    |                                                                     
GAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAAC  >  minE/1933640‑1933777

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