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
A6 F1 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,569,893 C→T 27.6% L55L (CTG→TTG) ‡ yibI → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,569,8930CT27.6% 209.1 / 88.4 134L55L (CTG→TTG) ‡yibIpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base C (52/45);  new base T (17/20);  total (69/65)
Fisher's exact test for biased strand distribution p-value = 4.46e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.97e-01

Only 100 of 138 total aligned reads displayed.

ATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTA  >  minE/2569824‑2569959
                                                                     |                                                                  
 ttGCCGAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                                                   >  1:3191869/1‑70 (MQ=255)
 ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                                                   >  1:3853554/1‑70 (MQ=255)
 ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                                                  <  1:4366441/71‑1 (MQ=255)
 ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                                                  >  1:1663345/1‑71 (MQ=255)
  tGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                                                  >  1:992449/1‑70 (MQ=255)
     cAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATg                                                              >  1:4926543/1‑71 (MQ=255)
      aaaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                                             >  1:3214145/1‑71 (MQ=255)
       aaaaACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGt                                                             >  1:4942626/1‑70 (MQ=255)
         aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGTCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                          >  1:308777/1‑71 (MQ=255)
         aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                          >  1:1535867/1‑71 (MQ=255)
         aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                          >  1:1164799/1‑71 (MQ=255)
          aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                         <  1:5297502/71‑1 (MQ=255)
          aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                         <  1:5631368/71‑1 (MQ=255)
          aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                         <  1:22948/71‑1 (MQ=255)
           gcgcAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCt                                                        <  1:79918/71‑1 (MQ=255)
            cgcAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTg                                                       >  1:4147305/1‑71 (MQ=255)
               aaCCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                         <  1:3414335/66‑1 (MQ=255)
                atcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                                           >  1:1354295/3‑63 (MQ=255)
                 tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                                           <  1:5340909/61‑1 (MQ=255)
                 tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                                           <  1:2660539/61‑1 (MQ=255)
                 tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGt                                                  <  1:1009023/70‑1 (MQ=255)
                 ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                  <  1:4374643/71‑1 (MQ=255)
                 ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                  <  1:515595/71‑1 (MQ=255)
                 ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                  <  1:5276981/71‑1 (MQ=255)
                 ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                  <  1:2571623/71‑1 (MQ=255)
                 ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                  <  1:660972/71‑1 (MQ=255)
                   aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGtt                                                            >  1:3210049/1‑59 (MQ=255)
                   aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGtt                                                            >  1:5651686/1‑59 (MQ=255)
                   aTCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGttt                                                <  1:5020467/71‑1 (MQ=255)
                   aTCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGtt                                                 >  1:4722256/1‑70 (MQ=255)
                    tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                                               <  1:1196356/71‑1 (MQ=255)
                    tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                                               <  1:1489890/71‑1 (MQ=255)
                      ctcATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtg                                             >  1:2797549/3‑71 (MQ=255)
                      cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtg                                             <  1:2518199/71‑1 (MQ=255)
                      cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtg                                             <  1:2724093/71‑1 (MQ=255)
                      cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                              >  1:4563581/1‑70 (MQ=255)
                      cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                              <  1:3899699/70‑1 (MQ=255)
                      cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                              <  1:3068120/70‑1 (MQ=255)
                       tcATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                                           <  1:2215821/55‑1 (MQ=255)
                        cATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                              <  1:1049063/68‑1 (MQ=255)
                        cATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgtg                                           >  1:4692436/1‑71 (MQ=255)
                         aTGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtg                                             <  1:5633290/68‑1 (MQ=255)
                         aTGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTgg                                          <  1:1260818/71‑1 (MQ=255)
                          tGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGa                                         <  1:1399860/71‑1 (MQ=255)
                           gCCGACGCTATTCATACGGCTGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGa                                         <  1:469848/70‑1 (MQ=255)
                           gCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGttttt                                              >  1:1053594/1‑63 (MQ=255)
                           gCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtg                                             >  1:1212457/1‑66 (MQ=255)
                           gCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtg                                             >  1:5564650/1‑66 (MQ=255)
                           gCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGAt                                        >  1:5610432/1‑71 (MQ=255)
                             cGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGAttt                                      <  1:2189882/71‑3 (MQ=255)
                              gACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTg                                     <  1:912649/71‑1 (MQ=255)
                               aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGGCGTTTCTGTGGATCTg                                     <  1:4249926/70‑1 (MQ=255)
                                cGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGt                                                  <  1:3773534/56‑1 (MQ=255)
                                    aTTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCa                                                                <  1:2225296/38‑1 (MQ=255)
                                      tCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTgg                                          >  1:1897592/1‑58 (MQ=255)
                                       cATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGc                             >  1:876759/1‑70 (MQ=255)
                                        aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                                            <  1:4225046/38‑1 (MQ=255)
                                        aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                                            <  1:35103/38‑1 (MQ=255)
                                        aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                                            <  1:2048063/38‑1 (MQ=255)
                                        aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                                            <  1:4698348/38‑1 (MQ=255)
                                        aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc                           <  1:17661/71‑1 (MQ=255)
                                          aCGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                                               <  1:49556/49‑1 (MQ=255)
                                          aCGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTg                                     >  1:4947383/1‑59 (MQ=255)
                                           cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                                                    >  1:5406819/1‑43 (MQ=255)
                                           cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                                                    >  1:3358285/1‑43 (MQ=255)
                                           cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                                                    >  1:2241659/1‑43 (MQ=255)
                                                 gttGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgtg                                           <  1:4017103/44‑1 (MQ=255)
                                                 gttGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTGGGCCACGCTTTa                         >  1:5410307/3‑64 (MQ=255)
                                                 gCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:1167625/1‑57 (MQ=255)
                                                 gCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCg                  <  1:3910979/71‑1 (MQ=255)
                                                 gCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGAGCGACg                              <  1:734327/59‑1 (MQ=255)
                                                    gggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAg               >  1:2167260/1‑71 (MQ=255)
                                                        gAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGAtt                                       <  1:4228381/43‑2 (MQ=255)
                                                        gAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTGGGCCACGCTTTACCGCCCGGAGCggg           >  1:2862595/1‑69 (MQ=255)
                                                        gAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTg           >  1:2055722/1‑71 (MQ=255)
                                                         aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtgtg                                           >  1:2650144/1‑38 (MQ=255)
                                                         aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtgtg                                           >  1:24931/1‑38 (MQ=255)
                                                         aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTgg          >  1:1817937/1‑71 (MQ=255)
                                                         aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTg           <  1:4988941/70‑1 (MQ=255)
                                                         aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTg           <  1:179309/70‑1 (MQ=255)
                                                             tGTTTAGTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTgg      >  1:738884/1‑71 (MQ=255)
                                                              gTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATc                                       >  1:4858061/1‑37 (MQ=255)
                                                              gTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGt            <  1:3236798/64‑1 (MQ=255)
                                                              gTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTggg     >  1:4756302/1‑71 (MQ=255)
                                                               tttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTgggg    <  1:2954639/71‑1 (MQ=255)
                                                               tttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTgggg    <  1:3236960/71‑1 (MQ=255)
                                                               tttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTgggg    <  1:688267/71‑1 (MQ=255)
                                                                ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:1296281/1‑42 (MQ=255)
                                                                ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:3539379/1‑42 (MQ=255)
                                                                ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:3554903/1‑42 (MQ=255)
                                                                ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:1318107/1‑42 (MQ=255)
                                                                ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:1526812/1‑42 (MQ=255)
                                                                ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGc              >  1:3863784/1‑60 (MQ=255)
                                                                ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGc              >  1:692925/1‑60 (MQ=255)
                                                                ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGc              >  1:4911116/1‑60 (MQ=255)
                                                                 tACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAAc                    >  1:4468382/1‑53 (MQ=255)
                                                                 tACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAAc                    >  1:976676/1‑53 (MQ=255)
                                                                 tACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTggg     >  1:2295864/1‑68 (MQ=255)
                                                                 tACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTa  >  1:4382838/1‑71 (MQ=255)
                                                                   ctctGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCgg                 <  1:4119199/54‑1 (MQ=255)
                                                                     |                                                                  
ATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTA  >  minE/2569824‑2569959

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