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 2,569,892 T→G 27.6% T54T (ACT→ACG)  yibI → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,569,8920TG27.6% 160.3 / 104.4 134T54T (ACT→ACG) yibIpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (52/45);  new base G (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 = 1.00e+00

Only 100 of 140 total aligned reads displayed.

TGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTA  >  minE/2569822‑2569959
                                                                      |                                                                   
tGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTAct                                                                     >  1:4354769/1‑71 (MQ=255)
  aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                                                   >  1:2202953/1‑71 (MQ=255)
   ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                                                   >  1:3853554/1‑70 (MQ=255)
   ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                                                  <  1:4366441/71‑1 (MQ=255)
    tGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                                                  >  1:992449/1‑70 (MQ=255)
       cAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATg                                                              >  1:4926543/1‑71 (MQ=255)
        aaaaaaCGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGt                                                             >  1:2334898/1‑71 (MQ=255)
        aaaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                                             >  1:3214145/1‑71 (MQ=255)
         aaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                                             >  1:435764/1‑70 (MQ=255)
           aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGTCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                          >  1:308777/1‑71 (MQ=255)
           aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                          >  1:1164799/1‑71 (MQ=255)
           aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                                          >  1:1535867/1‑71 (MQ=255)
            aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                         <  1:5297502/71‑1 (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)
                   tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                                           <  1:1396186/61‑1 (MQ=255)
                   tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTAt                                                          >  1:3518308/2‑63 (MQ=255)
                   tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGt                                                  <  1:1009023/70‑1 (MQ=255)
                   ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                  <  1:660972/71‑1 (MQ=255)
                   ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                  <  1:2571623/71‑1 (MQ=255)
                   ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                                                  <  1:5276981/71‑1 (MQ=255)
                    cATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGt                                                             >  1:2114441/1‑59 (MQ=255)
                     aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGtt                                                            >  1:5651686/1‑59 (MQ=255)
                     aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGtt                                                            >  1:3210049/1‑59 (MQ=255)
                     aTCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGttt                                                <  1:5020467/71‑1 (MQ=255)
                      tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGttt                                                <  1:2742562/70‑1 (MQ=255)
                      tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                                               <  1:1489890/71‑1 (MQ=255)
                        cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtg                                             <  1:2724093/71‑1 (MQ=255)
                        cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                              <  1:3899699/70‑1 (MQ=255)
                        cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                              >  1:4563581/1‑70 (MQ=255)
                         tcATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                                           <  1:2215821/55‑1 (MQ=255)
                         tcATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGttttt                                              <  1:3591591/68‑3 (MQ=255)
                         ccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                                            <  1:3216579/55‑1 (MQ=255)
                          cATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                                              <  1:1049063/68‑1 (MQ=255)
                          cATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgtg                                           >  1:4692436/1‑71 (MQ=255)
                          cATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgtg                                           >  1:2941559/1‑71 (MQ=255)
                           aTGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtg                                             <  1:5633290/68‑1 (MQ=255)
                           aTGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTgg                                          <  1:1260818/71‑1 (MQ=255)
                            tGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTAct                                                                     <  1:3876431/43‑1 (MQ=255)
                            tGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGa                                         <  1:5629547/71‑1 (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)
                              ccGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGAt                                        >  1:1878292/1‑70 (MQ=255)
                                gACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTg                                     <  1:912649/71‑1 (MQ=255)
                                  cGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTggg                                   <  1:3254356/71‑1 (MQ=255)
                                       ttCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                                            <  1:4987888/41‑1 (MQ=255)
                                        tCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                                         <  1:5308913/43‑1 (MQ=255)
                                        tCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTgg                                          >  1:1897592/1‑58 (MQ=255)
                                         cATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACg                              >  1:4651877/1‑69 (MQ=255)
                                         cATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGc                             >  1:876759/1‑70 (MQ=255)
                                          aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                                            <  1:4225046/38‑1 (MQ=255)
                                          aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                                            <  1:35103/38‑1 (MQ=255)
                                          aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc                           <  1:17661/71‑1 (MQ=255)
                                            aCGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                                               <  1:49556/49‑1 (MQ=255)
                                            aCGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTg                                     >  1:4947383/1‑59 (MQ=255)
                                             cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                                                    >  1:2241659/1‑43 (MQ=255)
                                             cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                                                    >  1:5406819/1‑43 (MQ=255)
                                             cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                                                    >  1:4706747/1‑43 (MQ=255)
                                               gcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGcca                                >  1:4891553/1‑59 (MQ=255)
                                                   gttGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgtg                                           <  1:1668426/44‑1 (MQ=255)
                                                   gttGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTGGGCCACGCTTTa                         >  1:5410307/3‑64 (MQ=255)
                                                   gttGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTGGGCCACGCTTTa                         >  1:4930081/3‑64 (MQ=255)
                                                   gCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:1167625/1‑57 (MQ=255)
                                                   gCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCg                  <  1:3910979/71‑1 (MQ=255)
                                                   gCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGAGCGACg                              <  1:734327/59‑1 (MQ=255)
                                                    ttGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgtg                                           <  1:1205255/44‑1 (MQ=255)
                                                      gggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTgg                                          <  1:4455985/44‑1 (MQ=255)
                                                      gggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAg               >  1:5049589/1‑71 (MQ=255)
                                                      gggTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAg               >  1:2167260/1‑71 (MQ=255)
                                                       ggTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTGGGCCACGCTTTACCGCCCGGAg               <  1:408269/70‑1 (MQ=255)
                                                         tGAGTCTTTTTACGTTACATGTTATCTGGCCGttt                                                <  1:3095838/35‑1 (MQ=16)
                                                          gAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGAtt                                       <  1:4228381/43‑2 (MQ=255)
                                                          gAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTGGGCCACGCTTTACCGCCCGGAGCggg           >  1:2862595/1‑69 (MQ=255)
                                                          gAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTg           >  1:2055722/1‑71 (MQ=255)
                                                           aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtgtg                                           >  1:24931/1‑38 (MQ=255)
                                                           aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtgtg                                           >  1:2650144/1‑38 (MQ=255)
                                                           aGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTg           <  1:179309/70‑1 (MQ=255)
                                                               tGTTTAGTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTgg      >  1:738884/1‑71 (MQ=255)
                                                               tGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTg       <  1:264557/70‑1 (MQ=255)
                                                                gTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATc                                       >  1:4858061/1‑37 (MQ=255)
                                                                gTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATc                                       >  1:2290054/1‑37 (MQ=255)
                                                                gTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTggg     >  1:4756302/1‑71 (MQ=255)
                                                                 tttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTgggg    <  1:688267/71‑1 (MQ=255)
                                                                 tttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTgggg    <  1:3236960/71‑1 (MQ=255)
                                                                 tttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTgggg    <  1:2954639/71‑1 (MQ=255)
                                                                  ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:1533267/1‑42 (MQ=255)
                                                                  ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:1318107/1‑42 (MQ=255)
                                                                  ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:1296281/1‑42 (MQ=255)
                                                                  ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGa                                >  1:3554903/1‑42 (MQ=255)
                                                                  ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGc              >  1:692925/1‑60 (MQ=255)
                                                                  ttACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGc              >  1:3863784/1‑60 (MQ=255)
                                                                   tACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAAc                    >  1:976676/1‑53 (MQ=255)
                                                                   tACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTa  >  1:4382838/1‑71 (MQ=255)
                                                                     ctctGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCgg                 <  1:4119199/54‑1 (MQ=255)
                                                                      |                                                                   
TGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTCTATCAACCGGAGCGTGGCTGGGGTA  >  minE/2569822‑2569959

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A