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 2,292,950 G→A 39.0% P27P (CCG→CCA)  gldA → glycerol dehydrogenase, NAD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,292,9500GA39.0% 55.7 / 71.3 108P27P (CCG→CCA) gldAglycerol dehydrogenase, NAD
Reads supporting (aligned to +/- strand):  ref base G (34/31);  new base A (28/14);  total (62/46)
Fisher's exact test for biased strand distribution p-value = 1.64e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.14e-01

Only 100 of 108 total aligned reads displayed.

CAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATCCACTGTC  >  minE/2292885‑2293013
                                                                 |                                                               
cAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCt                                                               >  1:2676060/1‑68 (MQ=255)
    cACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                          >  1:2087325/1‑69 (MQ=255)
    cACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                          >  1:3322517/1‑69 (MQ=255)
    cACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                          >  1:2293560/1‑69 (MQ=255)
    cACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                          >  1:874063/1‑69 (MQ=255)
          gTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCt                                                    >  1:2841408/1‑69 (MQ=255)
           tAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTg                                                   >  1:1767340/1‑69 (MQ=255)
               tACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGtt                                                <  1:1973186/68‑1 (MQ=255)
               tACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGtt                                                <  1:3024846/68‑1 (MQ=255)
               tACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGtt                                                <  1:1503620/68‑1 (MQ=255)
                 cATCCAGGGCGCTGATGTGATTAATCGTCTTGGCGAATACCTGAAGCCTCTGGCAGAACGCTGGTTAgt                                             <  1:1583326/69‑1 (MQ=255)
                 cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:828978/69‑1 (MQ=255)
                 cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:757274/69‑1 (MQ=255)
                 cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:1745337/69‑1 (MQ=255)
                 cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:1657349/69‑1 (MQ=255)
                 cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:2880791/69‑1 (MQ=255)
                 cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:3431756/69‑1 (MQ=255)
                 cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:3087292/69‑1 (MQ=255)
                    ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:1013713/69‑1 (MQ=255)
                    ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:159357/69‑1 (MQ=255)
                    ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:2088787/69‑1 (MQ=255)
                    ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:3285427/69‑1 (MQ=255)
                    ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:1905826/69‑1 (MQ=255)
                    ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:824104/69‑1 (MQ=255)
                    ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:577405/69‑1 (MQ=255)
                    ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:3007164/69‑1 (MQ=255)
                    ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:2858857/69‑1 (MQ=255)
                     cAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                          <  1:1867118/52‑1 (MQ=255)
                     cAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                          <  1:1145431/52‑1 (MQ=255)
                     cAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                          <  1:767971/52‑1 (MQ=255)
                     cAGGCCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                          <  1:2647175/52‑1 (MQ=255)
                      aGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                          <  1:236127/51‑1 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:3272804/1‑69 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:2608012/1‑69 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:588443/1‑69 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:2425280/1‑69 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:3413644/1‑69 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:3324892/1‑69 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:2047639/1‑69 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:1924559/1‑69 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:1070066/1‑69 (MQ=255)
                      aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                        >  1:140133/1‑69 (MQ=255)
                               aTGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                          <  1:512828/58‑1 (MQ=255)
                               aTGTAATTAATCGTCTGGTCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                               <  1:3417625/69‑1 (MQ=255)
                               aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                               <  1:2903540/69‑1 (MQ=255)
                               aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                               <  1:1869237/69‑1 (MQ=255)
                               aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                               <  1:2479502/69‑1 (MQ=255)
                               aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                               <  1:1568136/69‑1 (MQ=255)
                               aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                               <  1:2545072/69‑1 (MQ=255)
                               aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                               <  1:774212/69‑1 (MQ=255)
                               aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                               <  1:807632/69‑1 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACGTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:3295486/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCa                                                           >  1:1687898/1‑39 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:1832507/53‑1 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:442187/53‑1 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:1826025/53‑1 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                             <  1:1063984/53‑1 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACGAAttt                             >  1:2946399/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:1428172/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:1292833/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:3272618/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:2894449/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:2860437/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:1668464/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:3304379/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:2591944/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                             >  1:755993/1‑69 (MQ=255)
                                 gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAtt                              >  1:1079781/1‑68 (MQ=255)
                                    aTTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTg                            >  1:2875338/1‑67 (MQ=255)
                                    aTTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGt                           >  1:228375/1‑68 (MQ=255)
                                    aTTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGt                           >  1:1736648/1‑68 (MQ=255)
                                         tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg                     >  1:89491/1‑69 (MQ=255)
                                         tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg                     >  1:884443/1‑69 (MQ=255)
                                         tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg                     >  1:603561/1‑69 (MQ=255)
                                         tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg                     >  1:640454/1‑69 (MQ=255)
                                         tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg                     >  1:899239/1‑69 (MQ=255)
                                         tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg                     >  1:3184474/1‑69 (MQ=255)
                                         tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg                     >  1:3160027/1‑69 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:2503040/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:1353236/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:1430142/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:1724767/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:1743801/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:1749275/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:1858807/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:2053492/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:2094912/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:2240197/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:3369345/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:630986/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:604012/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:2536852/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:2578488/1‑68 (MQ=255)
                                           gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt                    >  1:2793001/1‑68 (MQ=255)
                                                      tACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATcc        >  1:2765592/1‑69 (MQ=255)
                                                      tACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATcc        >  1:2806935/1‑69 (MQ=255)
                                                              gCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATCCACTGTc  <  1:6207/67‑1 (MQ=255)
                                                              gCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATCCACTGTc  <  1:1441098/67‑1 (MQ=255)
                                                              gCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATCCACTGTc  <  1:485974/67‑1 (MQ=255)
                                                              gCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATCCACTGTc  <  1:1021912/67‑1 (MQ=255)
                                                                 |                                                               
CAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATCCACTGTC  >  minE/2292885‑2293013

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