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 2,179,432 A→G 65.4% intergenic (‑289/‑293) yhcC ← / → gltB predicted Fe‑S oxidoreductase/glutamate synthase, large subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,179,4320AG65.4% 96.9 / 69.6 124intergenic (‑289/‑293)yhcC/gltBpredicted Fe‑S oxidoreductase/glutamate synthase, large subunit
Reads supporting (aligned to +/- strand):  ref base A (17/26);  new base G (23/58);  total (40/84)
Fisher's exact test for biased strand distribution p-value = 2.30e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01

Only 100 of 126 total aligned reads displayed.

ACCAATTAAGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCCCTTTTAGCCTTAAAGATAAAATC  >  minE/2179368‑2179498
                                                                |                                                                  
aCCAATTAAGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCtt                                                                >  1:3063148/1‑69 (MQ=255)
aCCAATTAAGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCtt                                                                >  1:2335157/1‑69 (MQ=255)
aCCAATTAAGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCtt                                                                >  1:1245912/1‑69 (MQ=255)
       aaGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACa                                                         <  1:2041346/69‑1 (MQ=255)
       aaGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACa                                                         <  1:2988199/69‑1 (MQ=255)
       aaGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACa                                                         <  1:2994218/69‑1 (MQ=255)
       aaGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACa                                                         <  1:3139605/69‑1 (MQ=255)
       aaGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACa                                                         <  1:1548351/69‑1 (MQ=255)
       aaGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACa                                                         <  1:93500/69‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:549309/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:2069224/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:1835742/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:3343329/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:1728564/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:1714081/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:435387/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:1622797/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:1896825/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:1046148/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:2751381/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:745283/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:2808742/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:1177784/68‑1 (MQ=255)
          gCAGTATAAAATGCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:1992814/68‑1 (MQ=255)
              tataAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGa                                                  <  1:2805961/69‑1 (MQ=255)
              tataAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGa                                                  <  1:2056697/69‑1 (MQ=255)
               ataAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGaa                                                 <  1:1977499/69‑1 (MQ=255)
               ataAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGaa                                                 <  1:2341826/69‑1 (MQ=255)
               ataAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGaa                                                 <  1:856591/69‑1 (MQ=255)
                taAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGaa                                                 >  1:1039540/1‑68 (MQ=255)
                taAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGaa                                                 >  1:3306481/1‑68 (MQ=255)
                taAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGaa                                                 >  1:2142558/1‑68 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2370760/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2913209/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2897597/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:1428683/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:3226734/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:241604/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2613022/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2232919/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:3064584/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:1088873/68‑1 (MQ=255)
                      gCTGGTTTTCTCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2327826/68‑1 (MQ=255)
                      gCTGGTTTTATCGTCAGTTCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2670864/68‑1 (MQ=255)
                             ttGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTctct                                   <  1:464298/69‑1 (MQ=255)
                             ttGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTctct                                   <  1:271407/69‑1 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTa                                                              >  1:3080448/3‑41 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:2658018/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:2369970/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:2731766/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:693010/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:1026555/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:1946742/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:3371119/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:3275773/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:315280/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:2225967/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:1900710/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:917196/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTAt                                                             >  1:1865365/3‑42 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGt                                         >  1:327013/3‑62 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTtc                                      >  1:2171169/3‑65 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTctct                                   >  1:2100499/3‑68 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTa                                  >  1:2369551/3‑69 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTa                                  >  1:1351238/3‑69 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTa                                  >  1:1130213/3‑69 (MQ=255)
                              tctcgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTa                                  >  1:253970/3‑69 (MQ=255)
                                 cgtcAGTTCAAGGCAGTATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:2431259/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:3007440/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:2358768/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:842546/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:333477/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:1305363/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:1368322/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:1790779/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:1979178/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:2157576/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAAc                                <  1:225038/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAAc                                <  1:789173/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAAc                                <  1:1680226/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAAc                                <  1:1709600/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAAc                                <  1:1903710/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAAc                                <  1:223786/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAAc                                <  1:1009720/68‑1 (MQ=255)
                                 cgtcAGTTCAAGGCAGGATAAGCGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:2947607/68‑1 (MQ=255)
                                  gtcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGTCAGGTATTGGCTGTTTCTCTAAc                                <  1:637095/67‑1 (MQ=255)
                                   tcAGTTCAAGGCAGGATAAGGGTTAACACGCCTTTATGACAGt                                                       <  1:2579751/43‑1 (MQ=255)
                                       ttCAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:3068301/51‑1 (MQ=255)
                                         cAAGGCAGGATAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2454368/49‑1 (MQ=255)
                                         cAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGCCTGTTTCTCTAACGACTTCCCt                       >  1:1428241/1‑69 (MQ=255)
                                         cAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCCCt                       >  1:3180363/1‑69 (MQ=255)
                                         cAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCCCt                       >  1:1596363/1‑69 (MQ=255)
                                                   tAAGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2024038/39‑1 (MQ=25)
                                                     aGGGTTAACACGACTTTATGACAGTCAGGTATTGGCt                                           <  1:2653633/37‑1 (MQ=25)
                                                          tAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCCCTTTTAGCCTTAAAGATaa      >  1:1619236/1‑69 (MQ=255)
                                                          tAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCCCTTTTAGCCTTAAAGATaa      >  1:1999737/1‑69 (MQ=255)
                                                          tAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCCCTTTTAGCCTTAAAGATaa      >  1:1226340/1‑69 (MQ=255)
                                                          tAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCCCTTTTAGCCTTAAAGATaa      >  1:1060701/1‑69 (MQ=255)
                                                          tAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCACTTTTAGCCTTAAAGATaa      >  1:944602/1‑69 (MQ=255)
                                                              acacCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCCCTTTTAGCCTTAAAGATAAAATc  >  1:1231503/1‑69 (MQ=255)
                                                                |                                                                  
ACCAATTAAGGCAGTATAAAATGCTGGTTTTGTCGTCAGTTCAAGGCAGGATAAGGGTTAACACACCTTTATGACAGTCAGGAATTGACTGTTTCTCTAACGACTTCCCTTTTAGCCTTAAAGATAAAATC  >  minE/2179368‑2179498

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