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 F8 I0 R2 296 77.6 4260404 88.1% 3753415 61.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,523,040 T→C 39.7% K225K (AAA→AAG)  dinD ← DNA‑damage‑inducible protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,523,0400TC39.7% 74.2 / 141.4 116K225K (AAA→AAG) dinDDNA‑damage‑inducible protein
Reads supporting (aligned to +/- strand):  ref base T (34/36);  new base C (28/18);  total (62/54)
Fisher's exact test for biased strand distribution p-value = 2.54e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.26e-01

Only 100 of 127 total aligned reads displayed.

TTCCGCCAAGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTAGCCGCCAGTT  >  minE/2522970‑2523110
                                                                      |                                                                      
ttCCGCCAAGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGt                                                                        <  1:1094105/71‑1 (MQ=255)
     ccAAGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTg                                                                    >  1:2340578/1‑70 (MQ=255)
     ccAAGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTg                                                                    >  1:2322740/1‑70 (MQ=255)
     ccAAGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTg                                                                    >  1:1984380/1‑70 (MQ=255)
     ccAAGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTg                                                                    >  1:1644447/1‑70 (MQ=255)
     ccAAGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGa                                                                   <  1:3639717/71‑1 (MQ=255)
       aaGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAAt                                                                 <  1:3118124/71‑1 (MQ=255)
       aaGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAAt                                                                 <  1:3629906/71‑1 (MQ=255)
        aGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAAtt                                                                <  1:3451838/71‑1 (MQ=255)
         gTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTTTTTTGAATTc                                                               <  1:3049806/71‑1 (MQ=255)
         gTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTc                                                               <  1:2303750/71‑1 (MQ=255)
         gTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTc                                                               <  1:367643/71‑1 (MQ=255)
         gTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAAtt                                                                >  1:1838999/1‑70 (MQ=255)
         gTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAAt                                                                 <  1:495667/69‑1 (MQ=255)
         gTTCCTGAATGGTTCGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAAtt                                                                >  1:1179816/1‑70 (MQ=255)
            ccTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACg                                                            >  1:1764937/1‑71 (MQ=255)
            ccTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACg                                                            >  1:2670103/1‑71 (MQ=255)
            ccTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACg                                                            >  1:3330004/1‑71 (MQ=255)
                aaTGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGTTGCTTTGAATTCACGCCAt                                                        <  1:1710701/71‑1 (MQ=255)
                aaTGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCAt                                                        >  1:1335684/1‑71 (MQ=255)
                aaTGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCAt                                                        <  1:3353939/71‑1 (MQ=255)
                 aTGGTTTGCCTCACGTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATc                                                       >  1:3473887/1‑71 (MQ=255)
                 aTGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATc                                                       >  1:4256393/1‑71 (MQ=255)
                 aTGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATc                                                       >  1:2753352/1‑71 (MQ=255)
                 aTGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATc                                                       >  1:663122/1‑71 (MQ=255)
                 aTGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATc                                                       >  1:3328862/1‑71 (MQ=255)
                  tGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGa                                                                   >  1:1547518/1‑58 (MQ=255)
                  tGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGa                                                                   >  1:3045744/1‑58 (MQ=255)
                  tGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGa                                                                   >  1:4024041/1‑58 (MQ=255)
                  tGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGa                                                                   >  1:3721834/1‑58 (MQ=255)
                       tGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTc                                                               <  1:240566/57‑1 (MQ=255)
                       tGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGaa                                                                  >  1:1534713/1‑54 (MQ=255)
                       tGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGaa                                                                  >  1:1553569/1‑54 (MQ=255)
                       tGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCtt                                                 >  1:1274790/1‑71 (MQ=255)
                        gCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTg                                                                    <  1:2357272/51‑1 (MQ=255)
                            cACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTc                                                               >  1:4247704/1‑52 (MQ=255)
                            cACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATcc                                                      >  1:4128267/1‑61 (MQ=255)
                             aCCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGttt                                           >  1:3356588/1‑71 (MQ=255)
                             aCCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGttt                                           >  1:3810483/1‑71 (MQ=255)
                             aCCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGttt                                           >  1:58554/1‑71 (MQ=255)
                             aCCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGttt                                           >  1:264955/1‑71 (MQ=255)
                               cTTGCGACCCACGTCAAAGTGTGTGGTGTTTTCTTGCTGTTTTGAATTc                                                               <  1:3000399/49‑1 (MQ=255)
                               cTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTc                                                               <  1:2411775/49‑1 (MQ=255)
                               cTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTc                                                               <  1:1570682/49‑1 (MQ=255)
                               cTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGttttt                                         <  1:3937666/71‑1 (MQ=255)
                                 tGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGTTTttct                                       >  1:1062562/1‑71 (MQ=255)
                                 tGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGTTTttct                                       >  1:2641231/1‑71 (MQ=255)
                                 tGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGTTTttct                                       >  1:2106930/1‑71 (MQ=255)
                                 tGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGTTTttct                                       >  1:1650412/1‑71 (MQ=255)
                                 tGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGTTTttct                                       >  1:2171410/1‑71 (MQ=255)
                                 tGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGTTTttct                                       >  1:4107078/1‑71 (MQ=255)
                                     aCCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTg                                   <  1:1987781/71‑1 (MQ=255)
                                     aCCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTg                                   <  1:2597718/71‑1 (MQ=255)
                                     aCCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTg                                   <  1:673518/71‑1 (MQ=255)
                                     aCCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTg                                   <  1:406472/71‑1 (MQ=255)
                                     aCCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTg                                   <  1:1185110/71‑1 (MQ=255)
                                     aCCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTg                                   <  1:2312485/71‑1 (MQ=255)
                                        cACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATc                                                       >  1:2809559/1‑48 (MQ=255)
                                         aCGTCAAAGTGTGTGGTGTTTGCTTGCTGCTTTGaa                                                                  >  1:3407135/1‑36 (MQ=255)
                                              aaaGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGtt                                 >  1:798136/1‑64 (MQ=255)
                                              aaaGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGtt                                 >  1:2828514/1‑64 (MQ=255)
                                                aGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTg                                   <  1:3371718/60‑1 (MQ=255)
                                                aGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCt                        >  1:1097224/1‑71 (MQ=255)
                                                aGTGTGTGGTGTTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCt                        <  1:2566380/71‑1 (MQ=255)
                                                  tgtgtgGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTtcttct                                    <  1:308349/57‑1 (MQ=255)
                                                     gtggtgTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTg                               <  1:3528190/59‑1 (MQ=255)
                                                       ggtgTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTggg                             >  1:3305372/1‑59 (MQ=255)
                                                       ggtgTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTggg                             >  1:1147396/1‑59 (MQ=255)
                                                       ggtgTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTggg                             >  1:1360542/1‑59 (MQ=255)
                                                        gtgtTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAaga                 <  1:3187020/70‑1 (MQ=255)
                                                         tgtTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAgaga               <  1:1927739/71‑1 (MQ=255)
                                                         tgtTTGCTTGCTGCTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAgaga               <  1:428704/71‑1 (MQ=255)
                                                          gtTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAatag                <  1:1459640/69‑1 (MQ=255)
                                                          gtTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAagag                <  1:2036296/69‑1 (MQ=255)
                                                          gtTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAagag                <  1:1220384/69‑1 (MQ=255)
                                                           tttGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTc                       >  1:249922/1‑61 (MQ=255)
                                                           tttGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAagag                <  1:2326651/68‑1 (MQ=255)
                                                           tttGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAaga                 <  1:1175968/67‑1 (MQ=255)
                                                           tttGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAaga                 <  1:142538/67‑1 (MQ=255)
                                                           tttGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGAt              <  1:3148008/70‑1 (MQ=255)
                                                           tttGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGAt              <  1:2814244/70‑1 (MQ=255)
                                                           tttGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGAt              <  1:17366/70‑1 (MQ=255)
                                                             tgcttgctGTTTTGAATTCACGCCATCCCGCTTGAg                                              >  1:2117473/1‑36 (MQ=255)
                                                             tgcttgctGTTTTGAATTCACGCCATCCCGCTTGAGt                                             >  1:3659503/1‑37 (MQ=255)
                                                             tgcttgctGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTa            >  1:3332481/1‑70 (MQ=255)
                                                             tgcttgctGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTAg           >  1:2465649/1‑71 (MQ=255)
                                                             tgcttgctGCTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGAt              >  1:2012298/1‑68 (MQ=255)
                                                             tgcttgctGCTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGAt              >  1:2764575/1‑68 (MQ=255)
                                                             tgcttgctGCTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTAg           >  1:2316276/1‑71 (MQ=255)
                                                                  gctgctTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTAgccgc       <  1:3976107/70‑1 (MQ=255)
                                                                   ctGTTTTGAATTCACGCCATCACGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAgaga               <  1:728646/61‑1 (MQ=255)
                                                                   ctGCTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTg                                   <  1:4120473/41‑1 (MQ=255)
                                                                   ctGCTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTg                                   <  1:2105695/41‑1 (MQ=255)
                                                                      ttttGAATTCACGCCATCCCGCTTGAGTTTttcttc                                     >  1:1322084/1‑36 (MQ=255)
                                                                      ttttGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAaga                 >  1:658214/1‑56 (MQ=255)
                                                                      ttttGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTa            >  1:2686510/1‑61 (MQ=255)
                                                                      ttttGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTa            >  1:337525/1‑61 (MQ=255)
                                                                      ttttGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTa            >  1:3815246/1‑61 (MQ=255)
                                                                      ttttGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTAGCCGCCAGtt  >  1:740414/1‑71 (MQ=255)
                                                                      ttttGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTAGCCGCCAGt   >  1:1183158/1‑70 (MQ=255)
                                                                      |                                                                      
TTCCGCCAAGTTCCTGAATGGTTTGCCTCACCTTGCGACCCACGTCAAAGTGTGTGGTGTTTGCTTGCTGTTTTGAATTCACGCCATCCCGCTTGAGTTTTTCTTCTGTTTGGGTAGCTCGAAAGAGATTAGCCGCCAGTT  >  minE/2522970‑2523110

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