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 2,895,140 A→C 21.3% S58S (TCA→TCC)  yjfF → predicted sugar transporter subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,895,1400AC21.3% 160.3 / 43.1 103S58S (TCA→TCC) yjfFpredicted sugar transporter subunit
Reads supporting (aligned to +/- strand):  ref base A (53/28);  new base C (20/2);  total (73/30)
Fisher's exact test for biased strand distribution p-value = 1.91e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 104 total aligned reads displayed.

CAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGCGTGTTTCTGGCAAAAGTG  >  minE/2895074‑2895203
                                                                  |                                                               
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAgg                                                               >  1:898776/1‑69 (MQ=255)
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAgg                                                               >  1:840158/1‑69 (MQ=255)
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAgg                                                               >  1:2153296/1‑69 (MQ=255)
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAgg                                                               >  1:1708038/1‑69 (MQ=255)
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAgg                                                               >  1:2396524/1‑69 (MQ=255)
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAgg                                                               >  1:2483080/1‑69 (MQ=255)
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAgg                                                               >  1:3270779/1‑69 (MQ=255)
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAgg                                                               >  1:275955/1‑69 (MQ=255)
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAgg                                                               >  1:3004107/1‑69 (MQ=255)
cAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGAATGACCTTTGTGATCCTCTCAgg                                                               >  1:1802976/1‑69 (MQ=255)
     tCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTggg                                                           >  1:1847260/1‑68 (MQ=255)
     tCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGga                                                          >  1:809046/1‑69 (MQ=255)
     tCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGga                                                          >  1:145793/1‑69 (MQ=255)
       cTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCa                                                                 >  1:94181/1‑60 (MQ=255)
       cTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGgatc                                                        >  1:108695/1‑69 (MQ=255)
                 aTGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGgatcg                                                       >  1:3161431/1‑60 (MQ=255)
                 aTGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGgatcg                                                       >  1:3292344/1‑60 (MQ=255)
                 aTGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGgatcg                                                       >  1:2481399/1‑60 (MQ=255)
                 aTGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGgatcg                                                       >  1:716398/1‑60 (MQ=255)
                 aTGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGgatcg                                                       >  1:1624097/1‑60 (MQ=255)
                 aTGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGgatcg                                                       >  1:2285727/1‑60 (MQ=255)
                 aTGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGgatcg                                                       >  1:2231227/1‑60 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:2793879/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:2594798/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:2227826/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:776267/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:2165171/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:814386/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:2518183/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:1071894/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:115492/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:1886241/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:1365922/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:1667718/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:1655922/1‑67 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcg                                           >  1:1470889/1‑66 (MQ=255)
                       ttCTTGGGATAATCGCCGTTGGCACGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcgg                                          >  1:2492502/1‑67 (MQ=255)
                       ttCTTGGGATAAACGCCGTTGGCGTGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGtcg                                           >  1:2670013/1‑66 (MQ=255)
                        tCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGtcggttc                                       >  1:1330533/1‑69 (MQ=255)
                        tCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGtcggttc                                       >  1:2116005/1‑69 (MQ=255)
                        tCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGtcggttc                                       >  1:659338/1‑69 (MQ=255)
                        tCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGtcggttc                                       >  1:3323591/1‑69 (MQ=255)
                        tCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGtcggtt                                        >  1:1414307/1‑68 (MQ=255)
                             ggATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:2794952/68‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:1439072/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:2950941/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:1540706/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:3430394/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:2034889/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:1032859/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:2927639/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:2904550/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:825319/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:1474618/67‑1 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGa                                  >  1:3012364/1‑68 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGAt                                 >  1:2933651/1‑69 (MQ=255)
                              gATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGAt                                 >  1:1801819/1‑69 (MQ=255)
                               aTCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTg                                   <  1:2903489/66‑1 (MQ=255)
                                 cATTGCCGTTGGCATGATCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGc                              >  1:3170935/1‑69 (MQ=255)
                                 cATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGc                              >  1:1423842/1‑69 (MQ=255)
                                 cATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGc                              >  1:1315407/1‑69 (MQ=255)
                                 cATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGc                              >  1:1628231/1‑69 (MQ=255)
                                 cATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGc                              >  1:2500755/1‑69 (MQ=255)
                                  atcgCCGTTGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGc                              <  1:3296705/65‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGTTTCGGTGATCGcc                             >  1:2831372/1‑66 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:586141/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             >  1:3241701/1‑66 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:3336560/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:3430953/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:2762285/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:2138404/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             >  1:1996499/1‑66 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:1100454/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             >  1:1072835/1‑66 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:230404/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             >  1:3237748/1‑66 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             >  1:1508141/1‑66 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:1513218/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:157091/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:2960027/66‑1 (MQ=255)
                                     gCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGcc                             <  1:1548035/66‑1 (MQ=255)
                                       cGTTGGCATGACCTTTGGGATCCTCTCCGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGc                              <  1:3274243/63‑1 (MQ=255)
                                          tGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTAccg                      >  1:1781222/1‑66 (MQ=255)
                                          tGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACCgg                     >  1:1897103/1‑69 (MQ=255)
                                          tGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACCgg                     >  1:2700357/1‑69 (MQ=255)
                                          tGGCATGACCTTTGTGATCCTCTCCGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACCgg                     >  1:692916/1‑69 (MQ=255)
                                           ggCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTcc                                               >  1:268014/1‑42 (MQ=255)
                                           ggCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGc                    >  1:401337/1‑69 (MQ=255)
                                           ggCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGc                    >  1:351170/1‑69 (MQ=255)
                                           ggCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGc                    >  1:2048113/1‑69 (MQ=255)
                                           ggCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGc                    >  1:3382647/1‑69 (MQ=255)
                                           ggCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGc                    >  1:2000552/1‑69 (MQ=255)
                                           ggCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGc                    >  1:82353/1‑69 (MQ=255)
                                           ggCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGc                    >  1:940183/1‑69 (MQ=255)
                                              aTGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGtcggttcggt                                    >  1:2519838/1‑50 (MQ=255)
                                              aTGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCttt                          <  1:3011363/60‑1 (MQ=255)
                                                          aTCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGCGTGTTTCTGGCaaa      <  1:2307742/68‑1 (MQ=255)
                                                           tCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGCGTGtt               >  1:734241/1‑58 (MQ=255)
                                                             ctctCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGCGTGTTTCTGGCAAAAGTg  <  1:2063130/69‑1 (MQ=255)
                                                             ctctCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGCGTGTTTCTGGCAAAAGTg  <  1:3139710/69‑1 (MQ=255)
                                                                  |                                                               
CAATATCCTGACCGATAATGCCTTTCTTGGGATCATTGCCGTTGGCATGACCTTTGTGATCCTCTCAGGTGGGATCGATCTCTCCGTCGGTTCGGTGATCGCCTTTACTGGCGTGTTTCTGGCAAAAGTG  >  minE/2895074‑2895203

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