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 2,569,867 C→T 32.8% T46M (ACG→ATG) ‡ yibI → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,569,8670CT32.8% 150.9 / 103.2 128T46M (ACG→ATG) ‡yibIpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base C (37/49);  new base T (22/20);  total (59/69)
Fisher's exact test for biased strand distribution p-value = 3.49e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-01

Only 100 of 144 total aligned reads displayed.

TCGCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTC  >  minE/2569798‑2569934
                                                                     |                                                                   
tcGCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcg                                                                    >  1:3178585/1‑71 (MQ=255)
  gcgATACATGACATCCCTTATCTGATTGCCAAAAAGAGCAACTATCCCCATGCCGACGCTATTCATAcggc                                                                  >  1:2421094/1‑71 (MQ=255)
      tACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcggc                                                                  <  1:2005412/67‑1 (MQ=255)
      tACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcggc                                                                  <  1:1745259/67‑1 (MQ=255)
      tACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcggc                                                                  <  1:3118730/67‑1 (MQ=255)
        cATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTg                                                            >  1:2695250/1‑71 (MQ=255)
        cATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTg                                                            >  1:4990284/1‑71 (MQ=255)
          tGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTggg                                                          <  1:3918818/71‑1 (MQ=255)
                 ccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGc                                                     <  1:3576495/69‑1 (MQ=255)
                 ccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCt                                                   <  1:2332947/71‑1 (MQ=255)
                 ccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCt                                                   >  1:2166381/1‑71 (MQ=255)
                  cTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTg                                                  >  1:4444284/1‑71 (MQ=255)
                   ttATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGt                                                 >  1:2197050/1‑71 (MQ=255)
                    tATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTgg                                                           <  1:3690337/60‑1 (MQ=255)
                    tATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGtt                                                >  1:3801171/1‑71 (MQ=255)
                     accTGATTGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                                >  1:4671916/3‑70 (MQ=255)
                     accTGATTGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                                >  1:4720228/3‑70 (MQ=255)
                     accTGATTGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                                >  1:5464106/3‑70 (MQ=255)
                     aTCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGtt                                                >  1:5463544/1‑70 (MQ=255)
                     aTCTGATTGCCAAAAAGCGCAACCATCCCAATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGtt                                                >  1:1190558/1‑70 (MQ=255)
                      tCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcgg                                                                   >  1:802442/1‑50 (MQ=255)
                       cTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTg                                                  <  1:5044695/66‑1 (MQ=255)
                        tGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTAct                                            >  1:4354769/1‑71 (MQ=255)
                         gATTGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTAcgt                                           >  1:172019/1‑69 (MQ=255)
                         gATTGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTAcgt                                           >  1:5291234/1‑69 (MQ=255)
                          aTTGCCAAAAAGCGCAACCATCCTCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTAc                                             <  1:5367204/68‑1 (MQ=255)
                          aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                          >  1:2202953/1‑71 (MQ=255)
                           ttGCCGAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                          >  1:3191869/1‑70 (MQ=255)
                           ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                          >  1:3853554/1‑70 (MQ=255)
                           ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                         >  1:1663345/1‑71 (MQ=255)
                            tGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                         >  1:992449/1‑70 (MQ=255)
                               cAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATg                                     >  1:4926543/1‑71 (MQ=255)
                                aaaaaaCGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGt                                    >  1:2334898/1‑71 (MQ=255)
                                aaaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                    >  1:1269569/1‑71 (MQ=255)
                                aaaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                    >  1:3214145/1‑71 (MQ=255)
                                 aaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTa                                              >  1:5133009/1‑60 (MQ=255)
                                 aaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                    >  1:435764/1‑70 (MQ=255)
                                 aaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                                    >  1:722329/1‑70 (MQ=255)
                                 aaaaACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGt                                    >  1:4942626/1‑70 (MQ=255)
                                   aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGTCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                 >  1:308777/1‑71 (MQ=255)
                                   aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTgg                                                           >  1:2292439/1‑45 (MQ=255)
                                   aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                                 >  1:1535867/1‑71 (MQ=255)
                                     gcgcAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCt                               <  1:79918/71‑1 (MQ=255)
                                      cgcAACCCTCCCCATGCCGACGCTATTCATAcggc                                                                  <  1:1241900/35‑1 (MQ=255)
                                         aaCCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                <  1:3414335/66‑1 (MQ=255)
                                           tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                  <  1:5340909/61‑1 (MQ=255)
                                           tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                  <  1:768040/61‑1 (MQ=255)
                                           tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                  <  1:1396186/61‑1 (MQ=255)
                                           tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTa                                  <  1:2660539/61‑1 (MQ=255)
                                           tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTAt                                 >  1:3518308/2‑63 (MQ=255)
                                           tcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGt                         <  1:1009023/70‑1 (MQ=255)
                                           ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                         <  1:660972/71‑1 (MQ=255)
                                           ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                         <  1:4374643/71‑1 (MQ=255)
                                           ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                         <  1:5276981/71‑1 (MQ=255)
                                            cATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGt                                    >  1:2114441/1‑59 (MQ=255)
                                             aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGtt                                   >  1:5651686/1‑59 (MQ=255)
                                             aTCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGtt                        >  1:4722256/1‑70 (MQ=255)
                                              tCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTAcgt                                           <  1:1132009/50‑3 (MQ=255)
                                              tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGtt                                                <  1:2935852/45‑1 (MQ=255)
                                              tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGttt                       <  1:2742562/70‑1 (MQ=255)
                                              tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                      <  1:1196356/71‑1 (MQ=255)
                                              tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                      <  1:1489890/71‑1 (MQ=255)
                                              accccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCt                                                   <  1:3960212/41‑1 (MQ=255)
                                                ctcATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtg                    >  1:2797549/3‑71 (MQ=255)
                                                cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtg                    <  1:2518199/71‑1 (MQ=255)
                                                cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtg                    <  1:2724093/71‑1 (MQ=255)
                                                cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                     <  1:3899699/70‑1 (MQ=255)
                                                cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                     <  1:3068120/70‑1 (MQ=255)
                                                cccATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCt                     <  1:1131859/70‑1 (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)
                                                     gCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGAt               >  1:5610432/1‑71 (MQ=255)
                                                      ccGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGAt               >  1:1878292/1‑70 (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)
                                                               ttCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                   <  1:4987888/41‑1 (MQ=255)
                                                                tCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                                <  1:5308913/43‑1 (MQ=255)
                                                                 cATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACg     >  1:4651877/1‑69 (MQ=255)
                                                                 cATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGc    >  1:876759/1‑70 (MQ=255)
                                                                  aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                   <  1:2048063/38‑1 (MQ=255)
                                                                  aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                   <  1:35103/38‑1 (MQ=255)
                                                                  aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGtt                                   <  1:4225046/38‑1 (MQ=255)
                                                                  aTACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGctc  <  1:17661/71‑1 (MQ=255)
                                                                    aCGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                      <  1:49556/49‑1 (MQ=255)
                                                                     cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                           >  1:2241659/1‑43 (MQ=255)
                                                                     cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                           >  1:4706747/1‑43 (MQ=255)
                                                                     cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGcc                           >  1:3358285/1‑43 (MQ=255)
                                                                     cggcggGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc                      >  1:944097/1‑48 (MQ=255)
                                                                     |                                                                   
TCGCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGGGCGACGCTC  >  minE/2569798‑2569934

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