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 834,668 T→C 23.1% R1042R (CGT→CGC)  narG → nitrate reductase 1, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE834,6680TC23.1% 203.5 / 63.1 117R1042R (CGT→CGC) narGnitrate reductase 1, alpha subunit
Reads supporting (aligned to +/- strand):  ref base T (36/54);  new base C (16/11);  total (52/65)
Fisher's exact test for biased strand distribution p-value = 1.21e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.41e-01

Only 100 of 128 total aligned reads displayed.

AACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCG  >  minE/834598‑834737
                                                                      |                                                                     
 acacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                                                       >  1:4333227/1‑70 (MQ=255)
   acGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAg                                                                    <  1:266260/71‑1 (MQ=255)
   acGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAg                                                                    >  1:1235246/1‑71 (MQ=255)
   acGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAg                                                                    >  1:5009384/1‑71 (MQ=255)
    cGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAg                                                                    >  1:1435995/1‑70 (MQ=255)
    cGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGc                                                                   <  1:2199704/71‑1 (MQ=255)
      tttCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCaa                                                                 >  1:538620/1‑71 (MQ=255)
       ttCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGc                                                                   >  1:2621404/1‑68 (MQ=255)
       ttCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGc                                                                   >  1:814090/1‑68 (MQ=255)
       ttCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGc                                                                   >  1:4392780/1‑68 (MQ=255)
            ataaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTAt                                                           >  1:924770/3‑71 (MQ=255)
             taaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATc                                                          <  1:4506961/70‑1 (MQ=255)
             cAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATc                                                          <  1:3411846/71‑1 (MQ=255)
              aaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTAt                                                           >  1:3529316/1‑69 (MQ=255)
              aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt                                                           >  1:2246712/1‑69 (MQ=255)
              aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                                                         <  1:3459054/71‑1 (MQ=255)
              aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                                                         <  1:1352667/71‑1 (MQ=255)
               aCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                                                         <  1:5645872/70‑1 (MQ=255)
                 gCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGa                                                      <  1:4554497/71‑1 (MQ=255)
                   cGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATc                                                    <  1:1855271/71‑1 (MQ=255)
                      ttACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAg                                                        <  1:2815240/64‑1 (MQ=255)
                      ttACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAcc                                                 <  1:1293817/71‑1 (MQ=255)
                      atACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCatc                                                 >  1:3748264/2‑69 (MQ=255)
                       tACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGa                                                      <  1:4099391/65‑1 (MQ=255)
                       tACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc                                                  >  1:2056047/1‑69 (MQ=255)
                       tACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc                                                  >  1:3263366/1‑69 (MQ=255)
                       tACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc                                                  >  1:906431/1‑69 (MQ=255)
                        acacCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAg                                               >  1:1594438/1‑71 (MQ=255)
                        acacAAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAg                                               >  1:2207608/1‑71 (MQ=255)
                         cacCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                                                       <  1:3450753/46‑1 (MQ=255)
                          acCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAg                                                        <  1:3148503/60‑1 (MQ=255)
                          acCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAg                                                        <  1:5362383/60‑1 (MQ=255)
                          acCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                                             <  1:1309397/71‑1 (MQ=255)
                          acCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                                             >  1:5194684/1‑71 (MQ=255)
                          acCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                                                       <  1:2697382/45‑1 (MQ=255)
                           ccAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                                             <  1:3916310/70‑1 (MQ=255)
                            cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTgg                                            >  1:1090091/1‑70 (MQ=255)
                            cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTgg                                            >  1:4225396/1‑70 (MQ=255)
                            cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGa                                           >  1:2432151/1‑71 (MQ=255)
                            cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGa                                           >  1:1345052/1‑71 (MQ=255)
                              aCGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                                             >  1:2991026/1‑67 (MQ=255)
                              aCGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                                             >  1:4478099/1‑67 (MQ=255)
                              aCGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGTAACTGTATCAGGATCACCAg                                               <  1:872409/65‑1 (MQ=255)
                              aCGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGTAACTGTATCAGGATCACCAg                                               <  1:325491/65‑1 (MQ=255)
                              aCGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGAt                                          >  1:3082494/1‑70 (MQ=255)
                              aCGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATg                                         >  1:2006238/1‑71 (MQ=255)
                               cGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGc                                        <  1:3842395/71‑1 (MQ=255)
                                 ttCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                                                         <  1:2628966/52‑1 (MQ=255)
                                 ttCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                                                         <  1:3479341/52‑1 (MQ=255)
                                 ttCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                                                         <  1:4081904/52‑1 (MQ=255)
                                 ttCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt                                                     <  1:1430241/56‑1 (MQ=255)
                                 ttCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTg                                             <  1:1613692/64‑1 (MQ=255)
                                  tCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTg                                     >  1:3554688/1‑71 (MQ=255)
                                   cACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                                                       <  1:2031250/36‑1 (MQ=255)
                                      gAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt                                 >  1:2426852/1‑71 (MQ=255)
                                      gAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt                                 <  1:4714232/71‑1 (MQ=255)
                                        gCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCg                               <  1:2854667/71‑1 (MQ=255)
                                        gCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCg                               >  1:3534533/1‑71 (MQ=255)
                                         cTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGa                                                      <  1:2412288/47‑1 (MQ=255)
                                         cTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGa                                                      <  1:1846671/47‑1 (MQ=255)
                                          tGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTg                                                              <  1:538502/38‑1 (MQ=255)
                                          tGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTg                                                              <  1:2084201/38‑1 (MQ=255)
                                          tGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTg                                                              <  1:4889442/38‑1 (MQ=255)
                                            aTCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATc                                                    <  1:5120110/46‑1 (MQ=255)
                                            aTCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATc                                                    <  1:4389639/46‑1 (MQ=255)
                                            aTCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGa                           <  1:3230051/71‑1 (MQ=255)
                                             tCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATc                                                    <  1:943826/45‑1 (MQ=255)
                                              cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAcc                                                 >  1:581817/1‑47 (MQ=255)
                                              cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAcc                                                 >  1:5323161/1‑47 (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)
                                               ccgtGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAg                        >  1:214927/4‑71 (MQ=255)
                                               ccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGaaa                         <  1:275250/70‑1 (MQ=255)
                                                cATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAg                                                        <  1:1793873/38‑1 (MQ=255)
                                                cATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGa                           <  1:4888609/67‑1 (MQ=255)
                                                 aTGGCGTACGCTCTCTGGTCGTCAGCAACTGTATc                                                          <  1:2890176/35‑1 (MQ=255)
                                                  tGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCct                     <  1:701343/71‑1 (MQ=255)
                                                  tGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCct                     <  1:1639736/71‑1 (MQ=255)
                                                  tGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGAGGCGTGCTTTTGGTGAAAGCct                     <  1:1222393/71‑1 (MQ=255)
                                                    gCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgc                   <  1:3837109/71‑1 (MQ=255)
                                                    gCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgc                   <  1:4569211/71‑1 (MQ=255)
                                                     cGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgct                  >  1:802042/1‑71 (MQ=255)
                                                     cGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgct                  >  1:3832964/1‑71 (MQ=255)
                                                      gTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCa                                                >  1:4693818/1‑40 (MQ=255)
                                                      gTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCa                                                >  1:1814474/1‑40 (MQ=255)
                                                       tACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc                                                  <  1:424938/37‑1 (MQ=255)
                                                       tACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc                                                  <  1:4558929/37‑1 (MQ=255)
                                                         cGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGt               <  1:5029826/70‑1 (MQ=255)
                                                          gCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGc                       >  1:274199/1‑61 (MQ=255)
                                                          gCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGc                       >  1:5330468/1‑61 (MQ=255)
                                                          gCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGc                       >  1:1064415/1‑61 (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)
                                                                      tcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAg                        <  1:597352/48‑1 (MQ=255)
                                                                      tcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAg                        <  1:2888177/48‑1 (MQ=255)
                                                                      tcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTccgcc   <  1:5683528/69‑1 (MQ=255)
                                                                      |                                                                     
AACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCG  >  minE/834598‑834737

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