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 1,010,065 T→C 35.8% S75S (TCT→TCC)  rstA → DNA‑bindng response regulator in two‑component regulatory system with RstB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,010,0650TC35.8% 74.5 / 72.5 117S75S (TCT→TCC) rstADNA‑bindng response regulator in two‑component regulatory system with RstB
Reads supporting (aligned to +/- strand):  ref base T (53/22);  new base C (14/28);  total (67/50)
Fisher's exact test for biased strand distribution p-value = 1.75e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 117 total aligned reads displayed.

ATCATGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGCACTGGA  >  minE/1010006‑1010124
                                                           |                                                           
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:223098/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:3150440/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:1789915/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:2099333/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:3278179/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:2598492/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:2584162/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:2536360/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:1670907/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:126792/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:2531812/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:1442834/1‑69 (MQ=255)
atcatGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:171330/1‑69 (MQ=255)
atcatGCCACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCCGGACCGAtt                                                    >  1:2093259/1‑69 (MQ=255)
  catGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTg                                                   <  1:863888/68‑1 (MQ=255)
   atGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGtt                                                 >  1:2209402/1‑69 (MQ=255)
   atGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGtt                                                 >  1:2193371/1‑69 (MQ=255)
   atGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGtt                                                 >  1:30772/1‑69 (MQ=255)
   atGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGtt                                                 >  1:2310060/1‑69 (MQ=255)
   atGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGtt                                                 >  1:1413381/1‑69 (MQ=255)
   atGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGtt                                                 >  1:2433975/1‑69 (MQ=255)
   atGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGtt                                                 >  1:301448/1‑69 (MQ=255)
   atGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGtt                                                 >  1:3204564/1‑69 (MQ=255)
   atGCTACCAGGCAAGGACGGCATGACCATCTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGtt                                                 >  1:710235/1‑69 (MQ=255)
             gCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACct                                       >  1:361058/1‑69 (MQ=255)
             gCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACct                                       >  1:2214950/1‑69 (MQ=255)
             gCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACct                                       >  1:2325051/1‑69 (MQ=255)
             gCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACct                                       >  1:409706/1‑69 (MQ=255)
             gCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACct                                       >  1:100641/1‑69 (MQ=255)
             gCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACct                                       >  1:1283325/1‑69 (MQ=255)
             gCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACct                                       >  1:777096/1‑69 (MQ=255)
                  gACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCtctctc                                  <  1:3301493/69‑1 (MQ=255)
                           aCCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGat                         >  1:3315705/1‑69 (MQ=255)
                           aCCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGat                         >  1:2251963/1‑69 (MQ=255)
                           aCCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGat                         >  1:76302/1‑69 (MQ=255)
                           aCCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGat                         >  1:2631569/1‑69 (MQ=255)
                           aCCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGat                         >  1:1782731/1‑69 (MQ=255)
                           aCCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGat                         >  1:3289684/1‑69 (MQ=255)
                           aCCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGat                         >  1:2003840/1‑69 (MQ=255)
                           aCCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGa                          >  1:312184/1‑68 (MQ=255)
                                 tGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:2088387/1‑69 (MQ=255)
                                  gTCGTGATTTACGCGGAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:2021081/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTGTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:2472866/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGaa                    >  1:3278602/1‑67 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:964381/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:922728/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:879071/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:1340005/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:275079/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:3411494/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:661161/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:1770395/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:1847033/1‑68 (MQ=255)
                                  gTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAAc                   >  1:460290/1‑68 (MQ=255)
                                    cGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCtctctc                                  >  1:801735/1‑51 (MQ=255)
                                    cGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCtctctc                                  >  1:1973784/1‑51 (MQ=255)
                                     gTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACcaca               <  1:622163/69‑1 (MQ=255)
                                     gTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACcaca               <  1:1563906/69‑1 (MQ=255)
                                     gTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACcac                <  1:1110978/68‑1 (MQ=255)
                                        aTTTACGCGCATAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATca            <  1:1071844/69‑2 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:982206/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:3320397/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:3258587/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:976375/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:3365122/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:784333/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:1038717/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:488029/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:2325007/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:1554605/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:1566896/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:1750036/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:1859129/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:1471994/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:1420218/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:2087061/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:117855/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:1150133/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:2745829/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:3032201/69‑1 (MQ=255)
                                        aTTTACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:3063601/69‑1 (MQ=255)
                                         tttACGCGCAAAGTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:2364879/68‑1 (MQ=255)
                                          ttACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCt           <  1:886994/68‑1 (MQ=255)
                                          ttACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCt           <  1:2324625/68‑1 (MQ=255)
                                           tACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCt           >  1:1206702/1‑67 (MQ=255)
                                           tACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTgg         >  1:3341671/1‑69 (MQ=255)
                                           tACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTgg         >  1:2861687/1‑69 (MQ=255)
                                             cgcgCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGc        <  1:1094779/68‑1 (MQ=255)
                                             cgcgCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGc        <  1:1113805/68‑1 (MQ=255)
                                             cgcgCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGc        <  1:1507374/68‑1 (MQ=255)
                                             cgcgCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGc        <  1:2018995/68‑1 (MQ=255)
                                             cgcgCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGc        <  1:267447/68‑1 (MQ=255)
                                             cgcgCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGc        <  1:2965119/68‑1 (MQ=255)
                                             cgcgCAAAGTGGGCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGc        <  1:2261522/68‑1 (MQ=255)
                                                  aaaGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGCACTGGa  <  1:2414714/69‑1 (MQ=255)
                                                   aaGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGCACTGGa  <  1:667310/68‑1 (MQ=255)
                                                   aaGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGCACTGGa  <  1:188930/68‑1 (MQ=255)
                                                    aGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGCACTGGa  <  1:2356669/67‑1 (MQ=255)
                                                     gTGGTCTGGACCGATTGTTCTTCTATCCTCTCTCGATAGCGATATGAACCACATCCt           <  1:1195782/57‑1 (MQ=255)
                                                     gTGGTCCGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATcc            <  1:3067319/56‑1 (MQ=255)
                                                           |                                                           
ATCATGCTACCAGGCAAGGACGGCATGACCATTTGTCGTGATTTACGCGCAAAGTGGTCTGGACCGATTGTTCTTCTAACCTCTCTCGATAGCGATATGAACCACATCCTGGCACTGGA  >  minE/1010006‑1010124

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