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 834,707 C→T 21.0% F1055F (TTC→TTT)  narG → nitrate reductase 1, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE834,7070CT21.0% 201.0 / 45.2 100F1055F (TTC→TTT) narGnitrate reductase 1, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (26/53);  new base T (12/9);  total (38/62)
Fisher's exact test for biased strand distribution p-value = 7.48e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.73e-01

Only 100 of 101 total aligned reads displayed.

GCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGTGATAGGCCAGA  >  minE/834638‑834774
                                                                     |                                                                   
gCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCg                                                                    >  1:3534533/1‑71 (MQ=255)
gCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCg                                                                    <  1:2854667/71‑1 (MQ=255)
 cTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGAATCAGGATCACCAGTGGATGCGTGATTTCgg                                                                   <  1:5682121/71‑1 (MQ=255)
    aTCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGa                                                                <  1:3230051/71‑1 (MQ=255)
      cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTg                                                                 >  1:5589866/1‑68 (MQ=255)
      cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGa                                                                >  1:1361191/1‑69 (MQ=255)
      cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGa                                                                >  1:3302829/1‑69 (MQ=255)
      cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTCATTTCGGTGa                                                                >  1:4694891/1‑69 (MQ=255)
       ccgtGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGaaa                                                              <  1:5323375/67‑1 (MQ=255)
       ccgtGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAg                                                             >  1:214927/4‑71 (MQ=255)
       ccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGaaa                                                              <  1:275250/70‑1 (MQ=255)
       ccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGaaa                                                              <  1:212152/70‑1 (MQ=255)
        cATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGa                                                                <  1:4888609/67‑1 (MQ=255)
          tGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCct                                                          <  1:701343/71‑1 (MQ=255)
          tGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCct                                                          <  1:1639736/71‑1 (MQ=255)
          tGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGAGGCGTGCTTTTGGTGAAAGCct                                                          <  1:1222393/71‑1 (MQ=255)
            gCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgc                                                        <  1:4569211/71‑1 (MQ=255)
            gCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgc                                                        <  1:3485840/71‑1 (MQ=255)
            gCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgc                                                        <  1:3837109/71‑1 (MQ=255)
             cGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgct                                                       >  1:802042/1‑71 (MQ=255)
             cGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgct                                                       >  1:3832964/1‑71 (MQ=255)
                 cGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGt                                                    <  1:5029826/70‑1 (MQ=255)
                  gCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGc                                                            >  1:5330468/1‑61 (MQ=255)
                  gCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGc                                                            >  1:274199/1‑61 (MQ=255)
                  gCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGc                                                            >  1:1064415/1‑61 (MQ=255)
                   ctctctGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTa                                                 <  1:2709479/71‑1 (MQ=255)
                      tctGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCg                                              >  1:4249911/1‑71 (MQ=255)
                         ggTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTg                                                                 <  1:5370868/49‑1 (MQ=255)
                         ggTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTg                                                                 <  1:5050167/49‑1 (MQ=255)
                         ggTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTg                                                                 <  1:407910/49‑1 (MQ=255)
                             gtcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTccgccg                                       <  1:4491433/71‑1 (MQ=255)
                             gccagcagCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGctt                                                  <  1:3311403/58‑1 (MQ=255)
                              tcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAg                                                             <  1:597352/48‑1 (MQ=255)
                              tcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAg                                                             <  1:2888177/48‑1 (MQ=255)
                              tcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAg                                                             <  1:4158301/48‑1 (MQ=255)
                              tcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTccgcc                                        <  1:5683528/69‑1 (MQ=255)
                               cAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCTGTGAAAGCCTGCTGGTTTATCGTccgcc                                        <  1:3695165/68‑1 (MQ=255)
                               cAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt                                                                  >  1:5359591/1‑42 (MQ=255)
                               cAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt                                                                  >  1:3626486/1‑42 (MQ=255)
                                agcagcTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGCTTATCGCCCGCCTATc                                    <  1:2868745/71‑1 (MQ=255)
                                agcagcTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGCTTATCGCCCGCCTATc                                    <  1:136506/71‑1 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTAt                                                >  1:1661191/1‑59 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGt                                             >  1:5052966/1‑62 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGa                                      >  1:1724886/1‑69 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGa                                      >  1:3327716/1‑69 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGa                                      >  1:3815079/1‑69 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGAt                                     >  1:2261944/1‑70 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGAt                                     >  1:154109/1‑70 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATc                                    <  1:4205993/71‑1 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATc                                    <  1:5529276/71‑1 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATc                                    >  1:2032962/1‑71 (MQ=255)
                                aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATc                                    <  1:247980/71‑1 (MQ=255)
                                 gCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCg                                   <  1:4420269/71‑1 (MQ=255)
                                  cAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGttt                                                  <  1:3942181/55‑1 (MQ=255)
                                  cAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCg                                   <  1:837594/70‑1 (MQ=255)
                                  cAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGa                                  <  1:4825885/71‑1 (MQ=255)
                                  cAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGa                                  <  1:4325118/71‑1 (MQ=255)
                                    aCTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGaca                                >  1:4505128/1‑71 (MQ=255)
                                     cTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCct                                                          <  1:3298944/44‑1 (MQ=255)
                                       gTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACAccc                             >  1:4966644/1‑71 (MQ=255)
                                       ctATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGCTTATCGCCCGCCTATCGACAccc                             >  1:3472373/2‑71 (MQ=255)
                                       ctATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGCTTATCGCCCGCCTATCGACAcc                              >  1:3260613/2‑70 (MQ=255)
                                        tATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGa                                      <  1:2438894/61‑1 (MQ=255)
                                          tCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGCTTATCGCCCGCCTAt                                     >  1:1388478/1‑60 (MQ=255)
                                           cAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGCTTATCg                                              >  1:724260/1‑50 (MQ=255)
                                           cAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGCTTATCGCCCGCCTATCGACACCCGtag                         >  1:557796/1‑69 (MQ=255)
                                            aGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGCTTATCGCCCGCCTATCGACACCCGtagc                        >  1:2117312/1‑68 (MQ=255)
                                            aGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCg                        <  1:577294/71‑1 (MQ=255)
                                            aGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCg                        <  1:334152/71‑1 (MQ=255)
                                            aGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCAGTTCg                        <  1:2738612/71‑1 (MQ=255)
                                             ggATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGac                                 <  1:12983/61‑1 (MQ=255)
                                              gATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCtggtgg                                                     >  1:1901660/1‑40 (MQ=19)
                                              gATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGCATATcgcccgcc                                        <  1:898825/53‑1 (MQ=255)
                                              gATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGt                      <  1:3629170/71‑1 (MQ=255)
                                                tCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGa                    <  1:1917789/71‑1 (MQ=255)
                                                tCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGa                    <  1:3104137/71‑1 (MQ=255)
                                                  aCCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGaa                   <  1:3637375/70‑1 (MQ=255)
                                                    cAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAaaga                <  1:120565/71‑1 (MQ=255)
                                                    cAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAaaga                <  1:3081619/71‑1 (MQ=255)
                                                    cAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAaag                 >  1:3904650/1‑70 (MQ=255)
                                                     cgTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGctt                                                  >  1:1934393/2‑36 (MQ=16)
                                                       tGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTa                                                 <  1:4460513/35‑1 (MQ=255)
                                                       tGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTa                                                 <  1:3517645/35‑1 (MQ=255)
                                                       tGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATc                                    <  1:2354310/48‑1 (MQ=255)
                                                         gATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACAcc                              >  1:4474786/1‑52 (MQ=255)
                                                         gATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGTg            <  1:929108/70‑1 (MQ=255)
                                                         gATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGTg            <  1:4011875/70‑1 (MQ=255)
                                                          aTGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGTGAt          <  1:4214503/71‑1 (MQ=255)
                                                          aTGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGTGAt          <  1:2580975/71‑1 (MQ=255)
                                                            gCGTGCTTTTGGTGAAAGCCTGGTGGCTTATcgcccgcc                                        <  1:3254970/39‑1 (MQ=19)
                                                             cGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGt             <  1:3909307/65‑1 (MQ=255)
                                                             cGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGt             <  1:2438277/65‑1 (MQ=255)
                                                              gTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGaca                                >  1:1074618/1‑45 (MQ=255)
                                                              gTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGTGATAGGc      <  1:4730299/71‑1 (MQ=255)
                                                              gTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGTGATAGGc      >  1:5599783/1‑71 (MQ=255)
                                                               tGATTTCGGTGAAAGCCTGCTGGTTTATCGTccgccg                                       <  1:415935/37‑1 (MQ=255)
                                                               tGATTTCGGTGAAAGCCTGCTGGTTTATCGTccgccg                                       <  1:2063339/37‑1 (MQ=255)
                                                                 cttttGGTGAAAGCCTGGTGGCTTATCGCCCGCCTATCGACACCCGta                          >  1:868645/2‑47 (MQ=255)
                                                                  tttCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGTGATAGGCCAGa  <  1:2058021/71‑1 (MQ=255)
                                                                   ttCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCg                                   >  1:4734083/1‑37 (MQ=255)
                                                                     |                                                                   
GCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCCGTTCGGTGAAAGAAGTGATAGGCCAGA  >  minE/834638‑834774

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