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 1,339,891 T→C 23.3% V262V (GTA→GTG)  wcaC ← predicted glycosyl transferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,339,8910TC23.3% 141.6 / 36.9 111V262V (GTA→GTG) wcaCpredicted glycosyl transferase
Reads supporting (aligned to +/- strand):  ref base T (36/49);  new base C (9/17);  total (45/66)
Fisher's exact test for biased strand distribution p-value = 6.49e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 112 total aligned reads displayed.

CGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTC  >  minE/1339824‑1339951
                                                                   |                                                            
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa                                                             <  1:2771869/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa                                                             <  1:232310/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa                                                             <  1:1194619/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa                                                             <  1:811581/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa                                                             <  1:2885540/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa                                                             <  1:1492647/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa                                                             <  1:1413812/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa                                                             <  1:2693189/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa                                                             <  1:1649917/69‑1 (MQ=255)
    gAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAg                                                         >  1:3328843/1‑69 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:2125855/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:1615416/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:2600901/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:2526104/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:2744914/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:2409273/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:2342415/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:215852/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:2966518/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:3162967/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:3372693/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:446969/68‑1 (MQ=255)
       cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:1011143/68‑1 (MQ=255)
        ggCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt                                                       <  1:2865821/67‑1 (MQ=255)
         gCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACGAGtt                                                       <  1:2686486/66‑1 (MQ=255)
         gCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGt                                                              >  1:2027649/1‑59 (MQ=255)
             gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt                                                >  1:3000634/1‑69 (MQ=255)
             gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt                                                >  1:3065182/1‑69 (MQ=255)
             gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt                                                >  1:502891/1‑69 (MQ=255)
             gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt                                                >  1:566260/1‑69 (MQ=255)
             gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt                                                >  1:87173/1‑69 (MQ=255)
             gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt                                                >  1:968607/1‑69 (MQ=255)
             gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt                                                >  1:2090680/1‑69 (MQ=255)
             gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt                                                >  1:1255864/1‑69 (MQ=255)
             gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCAACAGTTGCTGCtt                                                >  1:2306874/1‑69 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:652391/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:360453/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:3026953/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:3023344/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:1488525/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:1610238/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:1718869/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:1730500/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:2269770/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcgtcgt                                  <  1:1879665/69‑1 (MQ=255)
                           tATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCcggcgt                                  <  1:1315875/69‑1 (MQ=255)
                             tGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:118026/1‑69 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCTTCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:1410680/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCTTCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:3116243/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:729092/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:3241930/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:3294567/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:682053/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:3371830/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:1597128/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:1494856/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:3358056/1‑67 (MQ=255)
                               cAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTaa                                >  1:836992/1‑67 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:3160841/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:858127/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:1221119/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:2956296/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:559980/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:237388/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:588905/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:2861006/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:2773301/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:739413/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGAt                         <  1:1671549/69‑1 (MQ=255)
                                    cAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCCTAACGCAGAt                         <  1:2308262/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgg                    <  1:1196142/69‑2 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:3071471/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:688793/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:3386853/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:713516/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    >  1:817145/1‑69 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    >  1:1350819/1‑69 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:3166772/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    >  1:2075001/1‑69 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:2195308/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:1393439/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:2994940/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    >  1:1974209/1‑69 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:2347374/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    >  1:2814297/1‑69 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    >  1:2750486/1‑69 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:1611016/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:1614919/69‑1 (MQ=255)
                                         ttGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATgc                    <  1:2618481/69‑1 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:1121503/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:2584076/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:1629772/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:722911/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:718236/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:622043/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:2868533/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:1204496/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:2101083/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:1393077/1‑69 (MQ=255)
                                                           atcTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTc  >  1:3318777/1‑69 (MQ=255)
                                                                   |                                                            
CGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTTAGTTTTGCCGTCGTAACGCAGATCATGCGCCACCACCGCGATTTTC  >  minE/1339824‑1339951

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A