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 2,161,129 A→G 51.1% G153G (GGT→GGC)  murA ← UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,161,1290AG51.1% 0.6 / 86.6 97G153G (GGT→GGC) murAUDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase
Reads supporting (aligned to +/- strand):  ref base A (10/37);  new base G (31/18);  total (41/56)
Fisher's exact test for biased strand distribution p-value = 3.59e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CACATGATGGTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTAA  >  minE/2161076‑2161194
                                                     |                                                                 
cacaTGATGGTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCa                                                    >  1:1256597/1‑69 (MQ=255)
        ggTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:1763905/69‑1 (MQ=255)
         ttCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:1081778/67‑1 (MQ=255)
         gTCACCGTTGCGCCACCGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGAc                                               >  1:2544383/1‑65 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACgg                                             >  1:438360/1‑67 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:3331423/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:1876989/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:2166808/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:217461/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:2392471/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:2590502/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:2763859/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:2805968/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:2866494/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:2993891/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:3155478/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:3226565/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:1018413/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:3350305/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:3350638/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:335562/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:3377915/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:3397104/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:518630/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:555367/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:782708/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:954685/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:1432097/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:1734501/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:1738361/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:1300343/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:1061321/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGaa                                           >  1:1336002/1‑69 (MQ=255)
         gTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGa                                            >  1:1703274/1‑68 (MQ=255)
             ccGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:2764109/64‑1 (MQ=255)
             ccGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:1957569/64‑1 (MQ=255)
             ccGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:887233/64‑1 (MQ=255)
             ccGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:1138720/64‑1 (MQ=255)
             ccGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:1082913/64‑1 (MQ=255)
             ccGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:1293355/64‑1 (MQ=255)
             ccGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:2392286/64‑1 (MQ=255)
             ccGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:2992681/64‑1 (MQ=255)
             ccGTTGCCCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGa                                            <  1:2289867/64‑1 (MQ=255)
              cGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCCCCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:3110524/69‑1 (MQ=255)
              cGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:47967/69‑1 (MQ=255)
              cGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:3281424/69‑1 (MQ=255)
              cGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:2986812/69‑1 (MQ=255)
              cGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:2315379/69‑1 (MQ=255)
              cGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:681847/69‑1 (MQ=255)
              cGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:1393713/69‑1 (MQ=255)
              cGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:3104720/69‑1 (MQ=255)
               gTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:2270823/68‑1 (MQ=255)
                    tccAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:773327/67‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCTACGGAAGCTTTAACGt                                 <  1:2471986/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGGTTTAACGt                                 <  1:2004291/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:1150563/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:616121/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:669272/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:995379/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:762552/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:773919/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:86331/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:877383/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:901036/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:2010269/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:2166878/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:3092167/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:2502397/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:262650/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:1806215/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:2181647/68‑1 (MQ=255)
                    gcCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:2262741/68‑1 (MQ=255)
                     ccAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:1685034/67‑1 (MQ=255)
                             gACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:175223/59‑1 (MQ=255)
                               cTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:1015503/52‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACTGAAGCttt                                      <  1:3143397/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:1757071/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:3211641/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:2135864/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:1337022/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:220700/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:1325102/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:894545/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:1318288/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:573026/43‑1 (MQ=255)
                                        tCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:1428476/43‑1 (MQ=255)
                                         cACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCttt                                      <  1:1491465/42‑1 (MQ=255)
                                           cGATATGTGCGCCTTTCAAACGACCATCGACGGAAGCTTTAACGt                                 <  1:1125150/45‑1 (MQ=255)
                                                  tgCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTaa  >  1:1356986/1‑69 (MQ=255)
                                                  tgCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTaa  >  1:887809/1‑69 (MQ=255)
                                                  tgCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTaa  >  1:2915958/1‑69 (MQ=255)
                                                  tgCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTaa  >  1:2488543/1‑69 (MQ=255)
                                                  tgCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTaa  >  1:643183/1‑69 (MQ=255)
                                                  tgCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTaa  >  1:481241/1‑69 (MQ=255)
                                                  tgCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTaa  >  1:2999459/1‑69 (MQ=255)
                                                  tgCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTa   >  1:1882924/1‑68 (MQ=255)
                                                  tgCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTa   >  1:717108/1‑68 (MQ=255)
                                                     |                                                                 
CACATGATGGTCACCGTTGCGCCAACGCTGACTTTATCCATCACGATATGTGCACCTTTCAAACGACCATCGACGGAAGCTTTAACGTAACCTTCTTCCAGTTTGATGGTCGCGCCTAA  >  minE/2161076‑2161194

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