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
A2 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 451,725 C→G 30.9% L103L (CTG→CTC)  kdpA ← potassium translocating ATPase, subunit A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE451,7250CG30.9% 116.7 / 66.6 97L103L (CTG→CTC) kdpApotassium translocating ATPase, subunit A
Reads supporting (aligned to +/- strand):  ref base C (30/37);  new base G (23/7);  total (53/44)
Fisher's exact test for biased strand distribution p-value = 4.19e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.52e-01

Only 100 of 101 total aligned reads displayed.

GCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGCAA  >  minE/451659‑451793
                                                                  |                                                                    
gCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAg                                                                    >  1:2344205/1‑69 (MQ=255)
   cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 <  1:1577947/69‑1 (MQ=255)
   cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 <  1:80522/69‑1 (MQ=255)
   cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 <  1:335408/69‑1 (MQ=255)
   cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 <  1:2713434/69‑1 (MQ=255)
   cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 <  1:3384919/69‑1 (MQ=255)
   cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 <  1:3345661/69‑1 (MQ=255)
          gTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 <  1:1299379/62‑1 (MQ=255)
          gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                                                          <  1:724761/69‑1 (MQ=255)
          gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                                                          <  1:1371061/69‑1 (MQ=255)
          gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                                                          >  1:634185/1‑69 (MQ=255)
          gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                                                          >  1:3067735/1‑69 (MQ=255)
            ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                                                         >  1:1290318/1‑68 (MQ=255)
            ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                                                         >  1:1807783/1‑68 (MQ=255)
            ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                                                         >  1:2726726/1‑68 (MQ=255)
            ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                                                         >  1:1964040/1‑68 (MQ=255)
            ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                                                         >  1:2425639/1‑68 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2343177/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:3267730/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:1942945/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2476641/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2606397/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:3134601/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2735297/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2737932/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2805821/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2806931/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2816069/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2820109/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:3214660/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:3095959/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:158874/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:779736/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:772293/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:1475109/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:1269005/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:139578/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:851504/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:1793545/1‑59 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATT‑Agcgc                                                                 >  1:2466374/1‑58 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                                                       <  1:1291993/69‑1 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                                                       <  1:849708/69‑1 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                                                       <  1:2116362/69‑1 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                                                       >  1:296466/1‑69 (MQ=255)
             tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                                                       >  1:121223/1‑69 (MQ=255)
             tCACCGCTATAAGATTGCAAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                                                 >  1:2229700/1‑59 (MQ=255)
                   cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:1284649/69‑1 (MQ=255)
                   cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:3258410/69‑1 (MQ=255)
                   cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:1956415/69‑1 (MQ=255)
                   cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:1627980/69‑1 (MQ=255)
                   cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:699022/69‑1 (MQ=255)
                   cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:2324143/69‑1 (MQ=255)
                   cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:2240347/69‑1 (MQ=255)
                   cTATAACATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:1246540/69‑1 (MQ=255)
                       aaGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:1688248/65‑1 (MQ=255)
                                aGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                                                 <  1:1853787/56‑1 (MQ=255)
                                   tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg                                 >  1:2500505/1‑69 (MQ=255)
                                   tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg                                 >  1:1882251/1‑69 (MQ=255)
                                   tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg                                 >  1:345354/1‑69 (MQ=255)
                                   tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg                                 >  1:2428071/1‑69 (MQ=255)
                                        ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa                            <  1:1330983/69‑1 (MQ=255)
                                        ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa                            <  1:1681746/69‑1 (MQ=255)
                                        ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa                            <  1:3247816/69‑1 (MQ=255)
                                        ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa                            <  1:923869/69‑1 (MQ=255)
                                        ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa                            <  1:3112563/69‑1 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGGCAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:3014776/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:386164/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:81630/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:3208618/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:94975/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:1119906/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:295441/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:1302430/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:1469992/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:2321017/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:1538014/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:2224943/1‑69 (MQ=255)
                                          ggTGACAAAGCTGACGCCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg                          >  1:515123/1‑69 (MQ=255)
                                              aCAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                                                       <  1:477904/36‑1 (MQ=255)
                                                 aaGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGa                   <  1:2968357/69‑1 (MQ=255)
                                                 aaGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGa                   <  1:3061497/69‑1 (MQ=255)
                                                   gCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGa                   <  1:972410/67‑1 (MQ=255)
                                                   gCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGa                   <  1:962712/67‑1 (MQ=255)
                                                   gCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGa                   <  1:1395270/67‑1 (MQ=255)
                                                   gCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGa                   <  1:2635625/67‑1 (MQ=255)
                                                            ggTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGa                   <  1:1590768/58‑1 (MQ=255)
                                                            ggTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGa          >  1:231310/1‑67 (MQ=255)
                                                            ggTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGa          >  1:538407/1‑67 (MQ=255)
                                                            ggTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGa          >  1:74766/1‑67 (MQ=255)
                                                                ttCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGc    <  1:2204392/69‑1 (MQ=255)
                                                                ttCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGc    <  1:1762988/69‑1 (MQ=255)
                                                                ttCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGc    <  1:3388861/69‑1 (MQ=255)
                                                                ttCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGc    <  1:1472389/69‑1 (MQ=255)
                                                                ttCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGc    <  1:2348749/69‑1 (MQ=255)
                                                                ttCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGc    <  1:2466029/69‑1 (MQ=255)
                                                                ttCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGc    <  1:1208181/69‑1 (MQ=255)
                                                                ttCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGc    <  1:2880739/69‑1 (MQ=255)
                                                                  cAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGCaa  >  1:1852903/1‑69 (MQ=255)
                                                                  cAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGCaa  >  1:3335378/1‑69 (MQ=255)
                                                                  cAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGCaa  >  1:1001233/1‑69 (MQ=255)
                                                                  |                                                                    
GCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAGCGGCAGATAGTGCTGACCGAGCAA  >  minE/451659‑451793

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