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 504,079 G→A 33.2% H270Y (CAC→TAC)  ybhA ← predicted hydrolase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE504,0790GA33.2% 71.2 / 44.9 87H270Y (CAC→TAC) ybhApredicted hydrolase
Reads supporting (aligned to +/- strand):  ref base G (45/13);  new base A (10/19);  total (55/32)
Fisher's exact test for biased strand distribution p-value = 1.36e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGCCTGTGGCTGTACGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGGCGC  >  minE/504020‑504138
                                                           |                                                           
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATACCCGCCTGATTAAATCAGGTAGc                                                           >  1:1832403/1‑62 (MQ=255)
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATaaa                                                     >  1:3007367/1‑68 (MQ=255)
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATaaa                                                     >  1:1578078/1‑68 (MQ=255)
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATaaa                                                     >  1:2625911/1‑68 (MQ=255)
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATaaa                                                     >  1:3407090/1‑68 (MQ=255)
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATaaa                                                     >  1:769909/1‑68 (MQ=255)
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATaaa                                                     >  1:2900669/1‑68 (MQ=255)
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATaaa                                                     >  1:2742835/1‑68 (MQ=255)
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATaaa                                                     >  1:1097661/1‑68 (MQ=255)
ggCCTGTGGCTGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATaa                                                      >  1:2426430/1‑67 (MQ=255)
   cTGTGGCTGTACGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATg                                                   <  1:1750990/67‑1 (MQ=255)
   cTGTGGCTGTACGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATg                                                   <  1:730289/67‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAAGTGGGCa                                          <  1:2193938/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTggga                                           <  1:79775/68‑2 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:2718810/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:680359/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:3150022/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:3226460/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:3260968/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:1965996/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:677404/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:1521803/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:783028/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:1425753/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:2512398/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:869912/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:924128/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTGTGACGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:2074594/69‑1 (MQ=255)
          tGTATGCGCAAATTAAAAGTATGTCGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:308231/69‑1 (MQ=255)
          tGTACGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGc                                           <  1:1656917/68‑1 (MQ=255)
          tGTACGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGc                                           <  1:1493329/68‑1 (MQ=255)
          tGTACGCGCAAATTAAAAGGGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGc                                           <  1:1139105/68‑1 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:56132/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:2245751/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:2816304/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1088767/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:777737/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:791869/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:845355/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:938763/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:980224/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1657840/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1076296/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1144374/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1365890/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1406161/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1442991/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1613608/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:2239018/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1693942/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:1942610/1‑69 (MQ=255)
              cgcgCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGc                                      >  1:2045327/1‑69 (MQ=255)
                  cAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTc                                  <  1:1470469/69‑1 (MQ=255)
                       tAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGc                                           >  1:1695398/1‑55 (MQ=255)
                          aaGTGTGTCGATAACCGGCTGATTAAATCAGTTAGCTTTAAATGAACTGGGCa                                          <  1:3409871/53‑1 (MQ=255)
                             tgtgtCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTAt                       <  1:1989824/69‑1 (MQ=255)
                             tgtgtCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTAt                       <  1:1503120/69‑1 (MQ=255)
                             tgtgtCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTAt                       <  1:1568845/69‑1 (MQ=255)
                             tgtgtCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTAt                       <  1:2195060/69‑1 (MQ=255)
                             tgtgtCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTAt                       <  1:1280579/69‑1 (MQ=255)
                             tgtgtCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTAt                       <  1:2992091/69‑1 (MQ=255)
                                  cGATAACCGCCTGATTAAATCAGGTAGCTATAAATGAACTGGGCa                                          <  1:1917343/45‑1 (MQ=255)
                                   gATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGgtgt                          >  1:1441148/1‑60 (MQ=255)
                                   gATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGtt                         >  1:768112/1‑61 (MQ=255)
                                   gATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGtt                         >  1:706560/1‑61 (MQ=255)
                                   gATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGtt                         >  1:678437/1‑61 (MQ=255)
                                   gATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGtt                         >  1:2872723/1‑61 (MQ=255)
                                    aTAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCa                  <  1:500215/67‑1 (MQ=255)
                                                 tAAATCAGGTGGCTATATATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:1789061/1‑69 (MQ=255)
                                                 tAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:2455191/1‑69 (MQ=255)
                                                 tAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:216084/1‑69 (MQ=255)
                                                 tAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:2376014/1‑69 (MQ=255)
                                                 tAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:2594520/1‑69 (MQ=255)
                                                 tAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:3419514/1‑69 (MQ=255)
                                                 tAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:1272619/1‑69 (MQ=255)
                                                 tAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:1673753/1‑69 (MQ=255)
                                                 tAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:2683718/1‑69 (MQ=255)
                                                 tAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgc    >  1:1726887/1‑68 (MQ=255)
                                                  aaaTCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcgc  >  1:837880/1‑69 (MQ=255)
                                                  aaaTCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcgc  >  1:2803289/1‑69 (MQ=255)
                                                  aaaTCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcgc  >  1:564390/1‑69 (MQ=255)
                                                  aaaTCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcgc  >  1:3290877/1‑69 (MQ=255)
                                                  aaaTCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcgc  >  1:2943816/1‑69 (MQ=255)
                                                  aaaTCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcgc  >  1:1912777/1‑69 (MQ=255)
                                                  aaaTCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:1399608/1‑68 (MQ=255)
                                                  aaaTCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcg   >  1:1553489/1‑68 (MQ=255)
                                                  aaaTCAAGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGgcgc  >  1:230/1‑69 (MQ=255)
                                                           |                                                           
GGCCTGTGGCTGTACGCGCAAATTAAAAGTGTGTCGATAACCGCCTGATTAAATCAGGTGGCTATAAATGAACTGGGCAATGCTGTCGGTGGTGTTATCACCAATCACAATGTTGGCGC  >  minE/504020‑504138

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