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 F28 I1 R1 122 92.7 4382561 94.3% 4132755 66.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA minE 798,949 C→T M214I (ATG→ATA)  treA ← periplasmic trehalase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE798,9490CT100.0% 317.2 / NA 96M214I (ATG→ATA) treAperiplasmic trehalase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (44/52);  total (44/52)

Only 100 of 109 total aligned reads displayed.

CTTTTTGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGAC  >  minE/798882‑799016
                                                                   |                                                                   
cTTTTTGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTAt                                                                   >  1:2092/1‑70 (MQ=255)
cTTTTTGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTAt                                                                   >  1:367970/1‑70 (MQ=255)
cTTTTTGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTAt                                                                   >  1:2775777/1‑70 (MQ=255)
cTTTTTGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTAt                                                                   >  1:3103143/1‑70 (MQ=255)
cTTTTTGCATTTGCGGCAGGTATTGCTTCAACACGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTAt                                                                   >  1:697775/1‑70 (MQ=255)
   tttGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCa                                                                 <  1:1051964/69‑1 (MQ=255)
   tttGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCa                                                                 <  1:1057027/69‑1 (MQ=255)
   tttGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCa                                                                 <  1:2585311/69‑1 (MQ=255)
   tttGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCa                                                                 <  1:736805/69‑1 (MQ=255)
   tttGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCa                                                                 <  1:704238/69‑1 (MQ=255)
    ttGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCa                                                                 <  1:116291/68‑1 (MQ=255)
               tcAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCa                                                                 <  1:3289884/56‑1 (MQ=255)
                   gTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGtt                                               <  1:1224070/71‑1 (MQ=255)
                   gTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGtt                                               <  1:3741677/71‑1 (MQ=255)
                   gTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGtt                                               <  1:3906427/71‑1 (MQ=255)
                       tGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGc                                             >  1:3359754/1‑69 (MQ=255)
                       tGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGc                                             >  1:4367227/1‑69 (MQ=255)
                       tGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGc                                             >  1:2934236/1‑69 (MQ=255)
                       tGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGATGc                                             >  1:849697/1‑69 (MQ=255)
                        gCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGa                                           >  1:2510639/1‑70 (MQ=255)
                        gCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAg                                          >  1:2773735/1‑71 (MQ=255)
                        gCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAg                                          >  1:3993204/1‑71 (MQ=255)
                        gCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAg                                          >  1:188024/1‑71 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:2636530/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:1697752/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:1735199/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:1223011/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:484138/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:4380596/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:3496630/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:1765235/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:4313838/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:1811691/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:2386368/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:3944374/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:226061/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:3978241/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:3983255/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:2889490/69‑1 (MQ=255)
                            cAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:114098/69‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:838455/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:3069806/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:1022276/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:3220175/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:546126/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:3320698/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:3992729/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:3059708/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:4097168/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:4229587/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:2999900/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:1786835/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:2152511/71‑1 (MQ=255)
                               cgcgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:2415345/71‑1 (MQ=255)
                                 cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCg                                        <  1:1774577/64‑1 (MQ=255)
                                 cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTaaa                                 >  1:1262354/1‑71 (MQ=255)
                                 cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTaaa                                 >  1:4329583/1‑71 (MQ=255)
                                 cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTaaa                                 >  1:2543962/1‑71 (MQ=255)
                                 cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTaa                                  >  1:949034/1‑70 (MQ=255)
                                 cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTaa                                  >  1:2106007/1‑70 (MQ=255)
                                 cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTaa                                  >  1:4006648/1‑70 (MQ=255)
                                 cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTaa                                  >  1:2418059/1‑70 (MQ=255)
                                 cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTAGCGAGc                                         >  1:4163168/1‑63 (MQ=255)
                                     aTCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt                             <  1:3662424/71‑1 (MQ=255)
                                     aTCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt                             <  1:2407593/71‑1 (MQ=255)
                                     aTCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt                             <  1:4062483/71‑1 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAaagaa                                                       >  1:2134601/1‑44 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCt                                     >  1:3390267/1‑62 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCt                                     >  1:3084136/1‑62 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCt                                     >  1:811550/1‑62 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCt                                     >  1:1606019/1‑62 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCt                                     >  1:2608134/1‑62 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCt                                     >  1:1763487/1‑62 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCt                                     >  1:3103662/1‑62 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCt                                     >  1:1853091/1‑62 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt                             <  1:1114270/70‑1 (MQ=255)
                                      tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt                             <  1:3117310/70‑1 (MQ=255)
                                             cATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt                             <  1:3028967/63‑1 (MQ=255)
                                               tgctgcGCCAGTAACTCTACTATCAGGGCAaagaa                                                       >  1:3656581/1‑35 (MQ=255)
                                               tgctgcGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTTACTGCGGtt                   >  1:2259613/1‑71 (MQ=255)
                                               tgctgcGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGtt                   >  1:2623973/1‑71 (MQ=255)
                                               tgctgcGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGtt                   >  1:4021572/1‑71 (MQ=255)
                                               tgctgcGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGtt                   >  1:1728869/1‑71 (MQ=255)
                                                            aCTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata      >  1:4285889/1‑71 (MQ=255)
                                                            aCTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata      >  1:764619/1‑71 (MQ=255)
                                                            aCTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata      >  1:1602523/1‑71 (MQ=255)
                                                            aCTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata      >  1:651928/1‑71 (MQ=255)
                                                            aCTCTACTATCAGGGCAAAGAAGGGCGGTTGCGACCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata      >  1:775967/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTa                                   <  1:833687/39‑1 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATg    >  1:3235449/1‑70 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGa   >  1:560305/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGa   >  1:1739536/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGa   >  1:466973/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGa   >  1:1486265/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGa   >  1:288467/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGa   >  1:2372294/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGa   >  1:2505602/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGa   >  1:849613/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGATTGCCGTTGGGAATATGa   >  1:2420182/1‑71 (MQ=255)
                                                               ctactaTCAGGGCAAAGAAGGG‑GGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGAc  >  1:2112634/1‑71 (MQ=37)
                                                                   |                                                                   
CTTTTTGCATTTGCGGCAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATATGAC  >  minE/798882‑799016

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