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
A4 F21 I0 R1 1009 73.8 4146436 87.4% 3623985 60.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,366,284 A→G 19.2% I390T (ATC→ACC)  pepQ ← proline dipeptidase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,366,2840AG19.2% 217.6 / 47.5 99I390T (ATC→ACC) pepQproline dipeptidase
Reads supporting (aligned to +/- strand):  ref base A (38/42);  new base G (8/11);  total (46/53)
Fisher's exact test for biased strand distribution p-value = 8.00e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01

Only 100 of 101 total aligned reads displayed.

GCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAGCGCAGGTACG  >  minE/2366215‑2366353
                                                                     |                                                                     
gCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGAt                                                                      >  1:486247/1‑71 (MQ=255)
 gttCTATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATg                                                                     <  1:2274206/70‑1 (MQ=255)
 cTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGa                                                                       >  1:522638/1‑69 (MQ=255)
    cAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAg                                                                  >  1:883837/1‑71 (MQ=255)
      aTTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa                                                                <  1:359265/71‑1 (MQ=255)
       ttttCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa                                                                <  1:2560983/70‑1 (MQ=255)
       ttttCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa                                                                <  1:576317/70‑1 (MQ=255)
       ttttCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAg                                                               <  1:2624545/71‑1 (MQ=255)
         ttatGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGt                                                                 >  1:711558/4‑67 (MQ=255)
         ttCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGAt                                                                      >  1:243850/1‑62 (MQ=255)
         ttCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAgc                                                              >  1:2867062/1‑69 (MQ=255)
         ttCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGa                                                              <  1:2086202/70‑1 (MQ=255)
              ccAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATAcc                                                          <  1:3651524/69‑1 (MQ=255)
               cAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCgg                                                       <  1:2580490/71‑1 (MQ=255)
                  ttGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTc                                                    <  1:3210265/71‑1 (MQ=255)
                  ttGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTc                                                    <  1:3680385/71‑1 (MQ=255)
                   tGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTc                                                    >  1:4056402/1‑70 (MQ=255)
                   tGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTc                                                    >  1:4014103/1‑70 (MQ=255)
                    gAAGTGCTTGCTGAACTTCCCTTCACGCCACGGTGCCAGTAGCGATTCGGTGAAGTa                                                                <  1:238433/57‑1 (MQ=255)
                    gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGGTGaa                                                                   >  1:954470/1‑54 (MQ=255)
                    gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGGTGaa                                                                   >  1:3074409/1‑54 (MQ=255)
                    gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGaa                                                                   >  1:3378050/1‑54 (MQ=255)
                    gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCg                                                   <  1:3751485/70‑1 (MQ=255)
                    gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGa                                                  >  1:2083081/1‑71 (MQ=255)
                     aaGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTCGa                                                  <  1:1252428/70‑1 (MQ=255)
                     aaGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTCGAt                                                 <  1:2654692/71‑1 (MQ=255)
                        tgcttgctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATAccc                                                         >  1:2283562/1‑60 (MQ=255)
                        tgcttgctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATg                                                <  1:1213756/69‑1 (MQ=255)
                          cttgctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTCGATGGtt                                             >  1:1017443/1‑70 (MQ=255)
                           ttgctGTACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGa                                                                       >  1:535925/1‑43 (MQ=255)
                              ctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac                                        <  1:3105237/71‑1 (MQ=255)
                              ctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac                                        <  1:608552/71‑1 (MQ=255)
                                gAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTc                                                    <  1:2461698/57‑1 (MQ=255)
                                 aaCTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACAcc                                       <  1:3052127/69‑1 (MQ=255)
                                 aaCTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCAt                                     >  1:714694/1‑71 (MQ=255)
                                  aCTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGa                                                              >  1:463087/1‑45 (MQ=255)
                                   cTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa                                                                <  1:3274848/42‑1 (MQ=255)
                                   cTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTc                                                    <  1:980583/54‑1 (MQ=255)
                                    tGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCgg                                                       <  1:1226602/50‑1 (MQ=255)
                                     gCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTc                                                    >  1:3854734/1‑52 (MQ=255)
                                      cccTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGccc                                 <  1:157204/70‑1 (MQ=255)
                                        cTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCgg                               >  1:2252313/1‑70 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTCg                                                   <  1:619397/49‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTCGATGGTTAacac                                        <  1:3953367/60‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa                                                                <  1:955398/36‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGa                                                              <  1:2253395/38‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGa                                                              <  1:1694833/38‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGAt                                                             <  1:1250991/39‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGAt                                                             <  1:1960862/39‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGAt                                                             <  1:4081940/39‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATAcc                                                          <  1:4035217/42‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCgg                                                       <  1:515063/45‑1 (MQ=255)
                                         ttCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTc                                                    <  1:1979195/48‑1 (MQ=255)
                                          tCACGCCTCGGTGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTc                                                    <  1:2678078/47‑1 (MQ=39)
                                          tCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGa                                                              >  1:2298763/1‑37 (MQ=255)
                                           cACGCCACGGTGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTCGATGGTTAACAcc                                       >  1:254366/1‑59 (MQ=255)
                                           cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGa                                                              >  1:2300010/1‑36 (MQ=255)
                                           cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTaa                                           >  1:213415/1‑55 (MQ=255)
                                           cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTaa                                           >  1:3901198/1‑55 (MQ=255)
                                           cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTaa                                           >  1:3527829/1‑55 (MQ=255)
                                           cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAaca                                         >  1:1193146/1‑57 (MQ=255)
                                           cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCa                                      >  1:2528703/1‑60 (MQ=255)
                                           cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTg                            >  1:3925893/1‑70 (MQ=255)
                                           cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACACGGTTCGATGGTTAACACCATGCCCGGCTg                            >  1:3818815/1‑70 (MQ=255)
                                            aCGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac                                        <  1:3312569/57‑1 (MQ=255)
                                             cGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGgag                         <  1:1846087/71‑1 (MQ=255)
                                             cGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGgag                         <  1:1468954/71‑1 (MQ=255)
                                              gCCACGGTGCCAGTAGCGATTCGATGAAGTAGATAc                                                           >  1:1821711/1‑36 (MQ=255)
                                                cACGGTGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTCGa                                                  >  1:2349072/1‑43 (MQ=255)
                                                cACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGgaga                        >  1:3713394/1‑69 (MQ=255)
                                                cACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGaa                       >  1:2756910/1‑70 (MQ=255)
                                                 aCGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATa                     >  1:1291552/1‑71 (MQ=255)
                                                 aCGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATa                     >  1:1526074/1‑71 (MQ=255)
                                                   ggTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATAc                    <  1:3891887/70‑1 (MQ=255)
                                                   ggTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACg                   <  1:1508685/71‑1 (MQ=255)
                                                     tGCCAGTAGCGATTCGGTGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATa                     >  1:1759312/1‑67 (MQ=255)
                                                      gCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGt                >  1:2423965/1‑71 (MQ=255)
                                                      gCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGt                >  1:3679534/1‑71 (MQ=255)
                                                       ccAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTg               <  1:356696/71‑1 (MQ=255)
                                                         aGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc                              <  1:670467/54‑1 (MQ=255)
                                                           tAGCGATTCGGTGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCg                                <  1:2845824/50‑1 (MQ=255)
                                                           tAGCGATTCGGTGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCg                                <  1:1295506/50‑1 (MQ=255)
                                                           tAGCGATTCGGTGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCg                                <  1:1604487/50‑1 (MQ=255)
                                                           tAGCGATTCGGTGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCg                                <  1:3184665/50‑1 (MQ=255)
                                                           tAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAg            <  1:4080255/70‑1 (MQ=255)
                                                            aGCGATTCGGTGAAGTAGATACCCGGTTCGATGGTTAaca                                         >  1:821974/1‑40 (MQ=255)
                                                            aGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATa                     >  1:610903/1‑60 (MQ=255)
                                                            aGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATa                     >  1:1348492/1‑60 (MQ=255)
                                                            aGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATa                     >  1:3266991/1‑60 (MQ=255)
                                                             gCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGc              <  1:605621/66‑1 (MQ=255)
                                                             gCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAgcg          >  1:1738809/1‑70 (MQ=255)
                                                             gCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACAATGCCCGGCTGGAGAATACGGGTGCAgcg          >  1:338351/1‑70 (MQ=255)
                                                               gATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAgc           >  1:271653/1‑67 (MQ=255)
                                                                aTTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAGCGCAgg      >  1:1555748/1‑71 (MQ=255)
                                                                  tCGGTGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCa             >  1:896387/1‑62 (MQ=255)
                                                                  tCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAGCGCa        >  1:3712450/1‑67 (MQ=255)
                                                                    gATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAGCGCAGGTACg  <  1:3175905/71‑1 (MQ=255)
                                                                    gATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAGCGCAGGTACg  <  1:2806503/71‑1 (MQ=255)
                                                                    gATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAGCGCAGGTACg  <  1:2352279/71‑1 (MQ=255)
                                                                    gATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAGCGCAGGTACg  <  1:1819993/71‑1 (MQ=255)
                                                                     |                                                                     
GCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGGTGCAGCGCAGGTACG  >  minE/2366215‑2366353

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A