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 527,724 G→A 37.6% R159R (CGG→CGA)  ybhM → conserved inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE527,7240GA37.6% 65.1 / 66.1 106R159R (CGG→CGA) ybhMconserved inner membrane protein
Reads supporting (aligned to +/- strand):  ref base G (26/40);  new base A (26/14);  total (52/54)
Fisher's exact test for biased strand distribution p-value = 1.58e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

Only 100 of 109 total aligned reads displayed.

ATGATGACGTTGACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATA  >  minE/527662‑527791
                                                              |                                                                   
atgatgACGTTGACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCAtt                                                               >  1:1548014/1‑69 (MQ=255)
     gaCGTTGACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGat                                                          >  1:1071480/1‑69 (MQ=255)
     gaCGTTGACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGat                                                          >  1:883952/1‑69 (MQ=255)
     gaCGTTGACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGa                                                           >  1:126589/1‑68 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGat                                                          >  1:687836/1‑63 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:1695565/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:183259/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:1879210/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:1898785/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:2067114/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:2369377/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:2423454/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:244397/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:2927403/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:3334694/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:367479/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:553772/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:1244944/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:1235990/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:647276/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:1161743/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:1158457/1‑69 (MQ=255)
           gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                    >  1:700832/1‑69 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATATGtt                                                  <  1:2193608/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:1589361/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:1837997/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:1102779/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:1439491/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:1864640/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:2659799/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:187487/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:1552153/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:2027256/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:302683/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:1930780/68‑1 (MQ=255)
              aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                  <  1:547475/68‑1 (MQ=255)
                      cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                          <  1:2177748/68‑1 (MQ=255)
                      cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                          <  1:3420785/68‑1 (MQ=255)
                      cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                          <  1:3070359/68‑1 (MQ=255)
                      cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                          <  1:2859500/68‑1 (MQ=255)
                      cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                          <  1:2349869/68‑1 (MQ=255)
                      cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                          <  1:2755049/68‑1 (MQ=255)
                      cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                          <  1:344994/68‑1 (MQ=255)
                      cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                          <  1:1929623/68‑1 (MQ=255)
                       ccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                          <  1:2727689/67‑1 (MQ=255)
                         tGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACGCATTTGGGTAATAAGtt                                                  <  1:1449069/57‑1 (MQ=255)
                          ggTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATtgt                                     <  1:782974/69‑1 (MQ=255)
                          ggTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATtgt                                     <  1:681961/69‑1 (MQ=255)
                          ggTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATtgt                                     <  1:1158436/69‑1 (MQ=255)
                             aaTCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:1426815/69‑1 (MQ=255)
                              atcatcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:2165229/68‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTgtgt                                   <  1:3260118/64‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTgtgt                                   <  1:3256932/64‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:2624521/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:928884/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:737013/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:1213268/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:424589/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:312777/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:1339303/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:3371357/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:2460480/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:1517019/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:2381019/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:1942648/65‑1 (MQ=255)
                                 atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                  <  1:1879783/65‑1 (MQ=255)
                                      gAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAgg                         <  1:1299411/69‑1 (MQ=255)
                                      gAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAgg                         <  1:2993460/69‑1 (MQ=255)
                                       aaTGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAgg                         <  1:345676/68‑1 (MQ=255)
                                       aaTGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAgg                         <  1:419438/68‑1 (MQ=255)
                                       aaTGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAgg                         <  1:563339/68‑1 (MQ=255)
                                          gCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCAt                      >  1:217995/1‑68 (MQ=255)
                                                ttAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg               >  1:2054550/1‑69 (MQ=255)
                                                 tAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTgtgt                                   <  1:2116701/48‑1 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:1545233/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:1889108/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:1113526/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:1865200/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:2020757/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:1862499/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:1338013/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:1839682/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:2489278/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:175952/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:3363000/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:2097296/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:3299368/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:3217535/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:312778/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:1033804/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:2202599/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:2901394/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:2283999/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:2750013/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg           >  1:2398609/1‑69 (MQ=255)
                                                    tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTATCATg           >  1:2402898/1‑69 (MQ=255)
                                                         gAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGa      <  1:2178182/69‑1 (MQ=255)
                                                         gAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGa      <  1:1367786/69‑1 (MQ=255)
                                                             ggCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATa  <  1:2061904/69‑1 (MQ=255)
                                                             ggCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATa  <  1:3404028/69‑1 (MQ=255)
                                                              |                                                                   
ATGATGACGTTGACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATA  >  minE/527662‑527791

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