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 905,536 A→G 43.3% T212A (ACT→GCT)  ycjQ → predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE905,5360AG43.3% 21.9 / 76.2 97T212A (ACT→GCT) ycjQpredicted oxidoreductase, Zn‑dependent and NAD(P)‑binding
Reads supporting (aligned to +/- strand):  ref base A (30/25);  new base G (15/27);  total (45/52)
Fisher's exact test for biased strand distribution p-value = 9.97e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.48e-01

CCTATCGCCCATCGCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAACC  >  minE/905470‑905601
                                                                  |                                                                 
ccTATCGCCCATCGCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGGACt                                                                 <  1:1160337/69‑1 (MQ=255)
ccTATCGCCCATCGCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACt                                                                 <  1:3044716/69‑1 (MQ=255)
ccTATCGCCCATCGCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACt                                                                 <  1:1611435/69‑1 (MQ=255)
   aTCGCCCATCGCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGa                                                               >  1:2805485/1‑68 (MQ=255)
   aTCGCCCATCGCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGa                                                               >  1:2809447/1‑68 (MQ=255)
   aTCGCCCATCGCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGa                                                               >  1:1826191/1‑68 (MQ=255)
          aTCGCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTa                                                       <  1:365916/69‑1 (MQ=255)
             gCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTa                                                       >  1:1855344/1‑66 (MQ=255)
             gCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTa                                                       >  1:466845/1‑66 (MQ=255)
             gCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTa                                                       >  1:1348136/1‑66 (MQ=255)
             gCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTa                                                       >  1:2501104/1‑66 (MQ=255)
             gCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTa                                                       >  1:3075041/1‑66 (MQ=255)
             gCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTa                                                       >  1:1560798/1‑66 (MQ=255)
             gCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTa                                                       >  1:2923855/1‑66 (MQ=255)
             gCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTa                                                       >  1:1759077/1‑66 (MQ=255)
                   atatTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATc                                               >  1:2725710/1‑68 (MQ=255)
                   atatTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATc                                               >  1:1581820/1‑68 (MQ=255)
                   atatTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATc                                               >  1:1294376/1‑68 (MQ=255)
                   atatTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATc                                               >  1:799927/1‑68 (MQ=255)
                     atTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaa                                             <  1:1614567/68‑1 (MQ=255)
                     atTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaa                                             <  1:2861423/68‑1 (MQ=255)
                     atTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaa                                             <  1:2602931/68‑1 (MQ=255)
                     atTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaa                                             <  1:2775502/68‑1 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaaa                                           >  1:1049403/1‑69 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaaa                                           >  1:2212239/1‑69 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaaa                                           >  1:2001998/1‑69 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaaa                                           >  1:2127331/1‑69 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaaa                                           >  1:1086744/1‑69 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaaa                                           >  1:1834406/1‑69 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaaa                                           >  1:3053921/1‑69 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaaa                                           >  1:1442348/1‑69 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaaa                                           >  1:923515/1‑69 (MQ=255)
                      ttGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCaaa                                            >  1:2005877/1‑68 (MQ=255)
                        gCCCGTCGCCACGGCGAGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACg                                         <  1:2107303/69‑1 (MQ=255)
                             tCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTg                                      <  1:1913662/67‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCat                          <  1:2506281/69‑2 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:959557/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1554184/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:3073582/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1774824/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:3433906/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:3041363/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:211025/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1298016/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1792196/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1257073/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1829266/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:284293/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:2809510/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1251970/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:497760/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:513597/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:2653957/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:2005936/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1993969/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:2135035/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:231192/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:2181760/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:864768/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1232496/69‑1 (MQ=255)
                                       gcgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:2098869/69‑1 (MQ=255)
                                       gcgGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:198720/69‑1 (MQ=255)
                                       gcgGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:194764/69‑1 (MQ=255)
                                       gcgGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:1871263/69‑1 (MQ=255)
                                       gcgGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:617244/69‑1 (MQ=255)
                                        cgGATTTCTGTCTTAACCCCATTGGCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:2700877/68‑1 (MQ=255)
                                        cgGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAg                          <  1:2386697/68‑1 (MQ=255)
                                                     tAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGAt            <  1:3097547/69‑1 (MQ=255)
                                                     tAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGAt            <  1:3027858/69‑1 (MQ=255)
                                                           cATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGa      <  1:2231346/69‑1 (MQ=255)
                                                           cATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGa      <  1:53828/69‑1 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGTTGCCGATGTGATTATCGaa     >  1:3090390/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:443054/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:676933/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:564360/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:628698/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:1561135/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:3042651/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:2932448/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:2926984/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:2921953/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:838947/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:852157/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:85523/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:2097042/2‑67 (MQ=255)
                                                              tggCGCTGACGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGaa     >  1:2136654/2‑67 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  <  1:684436/69‑1 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  >  1:2956848/1‑69 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  <  1:3369194/69‑1 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  <  1:3176359/69‑1 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  >  1:2781023/1‑69 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  >  1:274587/1‑69 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  <  1:2741636/69‑1 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  >  1:2048541/1‑69 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  <  1:2227334/69‑1 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  <  1:2220245/69‑1 (MQ=255)
                                                               ggCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAAcc  >  1:2103766/1‑69 (MQ=255)
                                                                  |                                                                 
CCTATCGCCCATCGCTGTGATATTGCCCGTCGCCACGGCGCGGATTTCTGCCTTAACCCCATCGGCACTGATGTAGGTAAAGAGATCAAAACGCTGACCGGCAAGCAGGGTGCCGATGTGATTATCGAAACC  >  minE/905470‑905601

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