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 2,292,938 A→G 39.4% E23E (GAA→GAG)  gldA → glycerol dehydrogenase, NAD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,292,9380AG39.4% 49.4 / 80.8 114E23E (GAA→GAG) gldAglycerol dehydrogenase, NAD
Reads supporting (aligned to +/- strand):  ref base A (32/37);  new base G (36/9);  total (68/46)
Fisher's exact test for biased strand distribution p-value = 4.06e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01

Only 100 of 115 total aligned reads displayed.

GGACCGCATTATTCAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATC  >  minE/2292872‑2293006
                                                                  |                                                                    
ggACCGCATTATTCAATCACCAGGTAAATACATCCAGGGCGCAGATGTAATTAATCGTCTGGGCGAGTa                                                                    >  1:2876887/1‑69 (MQ=255)
ggACCGCATTATTCAATCACCAGGTAAATACATCCAGGGCGCAGATGTAATTAATCGTCTGGGCGAGTa                                                                    >  1:2741177/1‑69 (MQ=255)
ggACCGCATTATTCAATCACCAGGTAAATACATCCAGGGCGCAGATGTAATTAATCGTCTGGGCGAGTa                                                                    >  1:2618197/1‑69 (MQ=255)
ggACCGCATTATTCAATCACCAGGTAAATACATCCAGGGCGCAGATGTAATTAATCGTCTGGGCGAGTa                                                                    >  1:2615876/1‑69 (MQ=255)
ggACCGCATTATTCAATCACCAGGTAAATACATCCAGGGCGCAGATGTAATTAATCGTCTGGGCGAGTa                                                                    >  1:2456981/1‑69 (MQ=255)
ggACCGCATTATTCAATCACCAGGTAAATACATCCAGGGCGCAGATGTAATTAATCGTCTGGGCGAGTa                                                                    >  1:2432503/1‑69 (MQ=255)
ggACCGCATTATTCAATCACCAGGTAAATACATCCAGGGCGCAGATGTAATTAATCGTCTGGGCGAGTa                                                                    >  1:1458697/1‑69 (MQ=255)
ggACCGCATTATTCAATCACCAGGTAAATACATCCAGGGCGCAGATGTAATTAATCGTCTGGGCGAGTa                                                                    >  1:2273404/1‑69 (MQ=255)
 gACCGCATTATTCAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATAc                                                                   <  1:1050250/69‑1 (MQ=255)
 gACCGCATTATTCAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATAc                                                                   <  1:563595/69‑1 (MQ=255)
 gACCGCATTATTCAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATAc                                                                   <  1:383451/69‑1 (MQ=255)
 gACCGCATTATTCAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATAc                                                                   <  1:2685365/69‑1 (MQ=255)
         tattCAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGcc                                                           <  1:1718847/69‑1 (MQ=255)
             cAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCt                                                        >  1:2676060/1‑68 (MQ=255)
                 cACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                   >  1:2293560/1‑69 (MQ=255)
                 cACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                   >  1:3322517/1‑69 (MQ=255)
                 cACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                   >  1:2087325/1‑69 (MQ=255)
                 cACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                   >  1:874063/1‑69 (MQ=255)
                       gTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCt                                             >  1:2841408/1‑69 (MQ=255)
                        tAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTg                                            >  1:1767340/1‑69 (MQ=255)
                            tACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGtt                                         <  1:1503620/68‑1 (MQ=255)
                            tACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGtt                                         <  1:1973186/68‑1 (MQ=255)
                              cATCCAGGGCGCTGATGTGATTAATCGTCTTGGCGAATACCTGAAGCCTCTGGCAGAACGCTGGTTAgt                                      <  1:1583326/69‑1 (MQ=255)
                              cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:1657349/69‑1 (MQ=255)
                              cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:1745337/69‑1 (MQ=255)
                              cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:3087292/69‑1 (MQ=255)
                              cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:828978/69‑1 (MQ=255)
                              cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:757274/69‑1 (MQ=255)
                              cATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:2880791/69‑1 (MQ=255)
                                 ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                   <  1:1013713/69‑1 (MQ=255)
                                 ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                   <  1:577405/69‑1 (MQ=255)
                                 ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                   <  1:3285427/69‑1 (MQ=255)
                                 ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                   <  1:1905826/69‑1 (MQ=255)
                                 ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                   <  1:824104/69‑1 (MQ=255)
                                 ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                   <  1:3007164/69‑1 (MQ=255)
                                 ccAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                   <  1:2858857/69‑1 (MQ=255)
                                  cAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                   <  1:1145431/52‑1 (MQ=255)
                                  cAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                   <  1:767971/52‑1 (MQ=255)
                                  cAGGCCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAg                                                   <  1:2647175/52‑1 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:1070066/1‑69 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:2425280/1‑69 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:2047639/1‑69 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:1924559/1‑69 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:3272804/1‑69 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:3413644/1‑69 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:3324892/1‑69 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:2608012/1‑69 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:140133/1‑69 (MQ=255)
                                   aGGGCGCAGATGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGtggtgg                                 >  1:588443/1‑69 (MQ=255)
                                            aTGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgtggt                                   <  1:512828/58‑1 (MQ=255)
                                            aTGTAATTAATCGTCTGGTCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                        <  1:3417625/69‑1 (MQ=255)
                                            aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                        <  1:2903540/69‑1 (MQ=255)
                                            aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                        <  1:2635744/69‑1 (MQ=255)
                                            aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                        <  1:2545072/69‑1 (MQ=255)
                                            aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                        <  1:2479502/69‑1 (MQ=255)
                                            aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                        <  1:1568136/69‑1 (MQ=255)
                                            aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                        <  1:774212/69‑1 (MQ=255)
                                            aTGTAATTAATCGTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAAt                        <  1:1869237/69‑1 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACGTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                      >  1:3295486/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCa                                                    >  1:1687898/1‑39 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGACCGc                                              >  1:3000784/1‑45 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:1063984/53‑1 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:442187/53‑1 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:1826025/53‑1 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAgt                                      <  1:1832507/53‑1 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACGAAttt                      >  1:2946399/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                      >  1:755993/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                      >  1:1668464/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                      >  1:1428172/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                      >  1:2894449/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                      >  1:3272618/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                      >  1:2591944/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                      >  1:1292833/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAttt                      >  1:2860437/1‑69 (MQ=255)
                                              gtgATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAAtt                       >  1:1079781/1‑68 (MQ=255)
                                                 aTTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGt                    >  1:228375/1‑68 (MQ=255)
                                                 aTTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGt                    >  1:1736648/1‑68 (MQ=255)
                                                      tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg              >  1:640454/1‑69 (MQ=255)
                                                      tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg              >  1:603561/1‑69 (MQ=255)
                                                      tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg              >  1:884443/1‑69 (MQ=255)
                                                      tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg              >  1:89491/1‑69 (MQ=255)
                                                      tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg              >  1:899239/1‑69 (MQ=255)
                                                      tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg              >  1:3184474/1‑69 (MQ=255)
                                                      tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg              >  1:3160027/1‑69 (MQ=255)
                                                      tCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAgg              >  1:1805489/1‑69 (MQ=255)
                                                        gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt             >  1:1430142/1‑68 (MQ=255)
                                                        gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt             >  1:1724767/1‑68 (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             >  1:2190152/1‑68 (MQ=255)
                                                        gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt             >  1:2240197/1‑68 (MQ=255)
                                                        gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt             >  1:3369345/1‑68 (MQ=255)
                                                        gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt             >  1:2503040/1‑68 (MQ=255)
                                                        gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt             >  1:2536852/1‑68 (MQ=255)
                                                        gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt             >  1:631540/1‑68 (MQ=255)
                                                        gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt             >  1:630986/1‑68 (MQ=255)
                                                        gTCTGGGCGAGTACCTGAAGCCACTGGCGGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGt             >  1:2793001/1‑68 (MQ=255)
                                                                  aTACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATc  <  1:3340777/69‑1 (MQ=255)
                                                                  |                                                                    
GGACCGCATTATTCAATCACCGGGTAAATACATCCAGGGCGCTGATGTGATTAATCGTCTGGGCGAATACCTGAAGCCGCTGGCAGAACGCTGGTTAGTGGTGGGTGACAAATTTGTTTTAGGTTTTGCTCAATC  >  minE/2292872‑2293006

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