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 1,781,735 G→T 37.6% A62A (GCG→GCT)  yfjD → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,781,7350GT37.6% 104.9 / 91.9 117A62A (GCG→GCT) yfjDpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base G (47/26);  new base T (18/26);  total (65/52)
Fisher's exact test for biased strand distribution p-value = 2.07e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.46e-01

Only 100 of 130 total aligned reads displayed.

AACCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGAGGTAT  >  minE/1781670‑1781793
                                                                 |                                                          
aaCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGc                                                         >  1:1583131/1‑69 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          >  1:505960/1‑67 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          <  1:2505300/67‑1 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          <  1:552721/67‑1 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          >  1:2692847/1‑67 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          <  1:419064/67‑1 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          <  1:3083514/67‑1 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          <  1:2883012/67‑1 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          >  1:12834/1‑67 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          <  1:2233189/67‑1 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          <  1:1066511/67‑1 (MQ=255)
 aCCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCggg                                                          >  1:2963043/1‑67 (MQ=255)
     ggTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGc                                                    <  1:2593498/69‑1 (MQ=255)
     ggTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGc                                                    <  1:2381755/69‑1 (MQ=255)
        cAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAAt                                                 <  1:1239142/69‑1 (MQ=255)
        cAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAAt                                                 <  1:763862/69‑1 (MQ=255)
           tatTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAAtt                                                >  1:2963841/1‑67 (MQ=255)
           tatTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTg                                               >  1:2494517/1‑68 (MQ=255)
           tatTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATCGc                                              >  1:539002/1‑69 (MQ=255)
            atTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCg                                                        >  1:2816003/1‑58 (MQ=255)
            atTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGc                                              >  1:2820023/1‑68 (MQ=255)
            atTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGc                                              >  1:2087856/1‑68 (MQ=255)
            atTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGc                                              >  1:2399167/1‑68 (MQ=255)
            atTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCg                                             >  1:3341696/1‑69 (MQ=255)
            atTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCg                                             >  1:187557/1‑69 (MQ=255)
            atTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCg                                             >  1:477606/1‑69 (MQ=255)
            atTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCg                                             >  1:2841937/1‑69 (MQ=255)
             ttCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGa                                            >  1:1280030/1‑69 (MQ=255)
             ttCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGa                                            >  1:3246407/1‑69 (MQ=255)
                         cgcTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCt                                  <  1:556798/67‑1 (MQ=255)
                         cgcTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCt                                  <  1:39859/67‑1 (MQ=255)
                         cgcTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCt                                  <  1:2904288/67‑1 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGc                                              >  1:1420443/1‑44 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCg                                             >  1:1897545/1‑45 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACt                                          >  1:1402707/1‑48 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGTCTTTTGTCGt                      >  1:3410559/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTc                        >  1:3086236/1‑66 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:1560504/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:773059/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:730417/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:2786024/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:653992/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:1976946/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:2374221/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:2371700/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:2098523/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGt                      >  1:3237664/1‑68 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     <  1:1051496/69‑1 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     >  1:887564/1‑69 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     >  1:3359722/1‑69 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     >  1:1921077/1‑69 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     >  1:1347952/1‑69 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     >  1:1386945/1‑69 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     <  1:1895713/69‑1 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     >  1:1883298/1‑69 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     <  1:493486/69‑1 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     <  1:489925/69‑1 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     >  1:42187/1‑69 (MQ=255)
                                    aTTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTa                     <  1:2319367/69‑1 (MQ=255)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:598451/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:952090/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:3061494/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:3139369/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:708668/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:1575575/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:1469274/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:2010940/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:1350990/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:1323499/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:117257/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:170944/1‑50 (MQ=37)
                                             aTGCGCTTGTATGGCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGAcct                             >  1:1644877/1‑50 (MQ=37)
                                                  tttGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGa       >  1:2217939/1‑69 (MQ=255)
                                                  tttGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGa       >  1:2201517/1‑69 (MQ=255)
                                                  tttGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGa       >  1:1592228/1‑69 (MQ=255)
                                                  tttGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGa       >  1:185610/1‑69 (MQ=255)
                                                    tGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGAgg     <  1:3331871/69‑1 (MQ=255)
                                                    tGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGAgg     <  1:2016217/69‑1 (MQ=255)
                                                    tGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGAgg     <  1:1740080/69‑1 (MQ=255)
                                                    tGTACGGCGATGCGGGCGTGGCAATTGAGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGAgg     <  1:2555262/69‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:1543873/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:705083/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:1462760/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:1002544/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:1171893/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:1051553/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:926919/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:2940175/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:1548315/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:1727498/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:1816740/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:3373867/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:2077059/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:3303441/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:2729237/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:2759978/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:2796098/66‑1 (MQ=255)
                                                       atggCGATGCTGGCGTGGCAATTGCGACTGGCGTGCTGACCTTCGTAGTGCTGGTTTTTGCTGAAGTa   <  1:2912985/66‑1 (MQ=255)
                                                        cGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGAGGTAt  <  1:3166493/68‑1 (MQ=255)
                                                        cGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGAGGTAt  <  1:2908020/68‑1 (MQ=255)
                                                                 |                                                          
AACCTGGTCAATATTCTTGCCTCCGCGCTCGGCACTATTGTTGGGATGCGTTTGTACGGCGATGCGGGCGTGGCAATTGCGACTGGTGTGCTGACTTTTGTCGTACTGGTATTTGCTGAGGTAT  >  minE/1781670‑1781793

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