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 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,933,615 G→T 12.9% T276T (ACC→ACA)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,6150GT12.9% 341.1 / 22.2 115T276T (ACC→ACA) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (50/50);  new base T (9/6);  total (59/56)
Fisher's exact test for biased strand distribution p-value = 5.83e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.43e-01

Only 100 of 121 total aligned reads displayed.

CGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACAC  >  minE/1933547‑1933682
                                                                    |                                                                   
cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATgg                                                                    <  1:546070/70‑1 (MQ=255)
cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                                                   >  1:2260033/1‑71 (MQ=255)
 ggAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATtgtg                                                                  <  1:3179668/71‑1 (MQ=255)
 ggAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATtgtg                                                                  <  1:1985606/71‑1 (MQ=255)
 ggAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATgg                                                                    <  1:2105788/69‑1 (MQ=255)
 ggAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                                                   >  1:1987943/1‑70 (MQ=255)
   aaCAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGaa                                                                >  1:3827449/1‑71 (MQ=255)
   aaCAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGaa                                                                >  1:1244421/1‑71 (MQ=255)
       gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                                            <  1:2216259/71‑1 (MQ=255)
       gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                                            <  1:3855310/71‑1 (MQ=255)
        cGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGTGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTg                                                           <  1:1743573/71‑1 (MQ=255)
         gATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActc                                                             >  1:2322600/1‑68 (MQ=255)
           ttCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                                            <  1:1983370/67‑1 (MQ=255)
           ttCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGt                                                        >  1:3195258/1‑71 (MQ=255)
            tCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATg                                                                     >  1:146770/1‑57 (MQ=255)
            tCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATg                                                                     >  1:2884053/1‑57 (MQ=255)
             cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                      >  1:3364686/1‑71 (MQ=255)
             cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                      >  1:777507/1‑71 (MQ=255)
             cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                      >  1:1169826/1‑71 (MQ=255)
                tCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTAt                                                     <  1:607760/69‑1 (MQ=255)
                tCAGCTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATg                                                    <  1:2451787/70‑1 (MQ=255)
                 cAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGaa                                                                >  1:2092152/1‑57 (MQ=255)
                 cAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGaa                                                                >  1:3043963/1‑57 (MQ=255)
                 cAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGAc                                                  >  1:3286051/1‑71 (MQ=255)
                  aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                 >  1:2663657/1‑71 (MQ=255)
                   gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                 >  1:1850673/1‑70 (MQ=255)
                   gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGt                                                <  1:3933959/71‑1 (MQ=255)
                   gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGt                                                <  1:1877632/71‑1 (MQ=255)
                   gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGt                                                <  1:3595634/71‑1 (MQ=255)
                       gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACgg                                            <  1:3446948/71‑1 (MQ=255)
                       gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                             >  1:3195083/1‑70 (MQ=255)
                       gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                             <  1:1206485/70‑1 (MQ=255)
                       gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                             >  1:1757474/1‑70 (MQ=255)
                       gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                             >  1:3189364/1‑70 (MQ=255)
                        aTCAGATCTTTGTAATCTGCGTAAGCCATGAAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                           <  1:1078116/71‑1 (MQ=255)
                        aTCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                           <  1:3543291/71‑1 (MQ=255)
                         tCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaa                                          <  1:666948/71‑1 (MQ=255)
                         tCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                           >  1:3618664/1‑70 (MQ=255)
                          cAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTGCATCATGGTGAACTCTGGGTTATGACGTACGGaa                                          <  1:1139601/70‑1 (MQ=255)
                             aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAAc                                                               <  1:240769/46‑1 (MQ=255)
                             aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTggg                                                         >  1:2315991/1‑52 (MQ=255)
                             aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTggg                                                         >  1:1431123/1‑52 (MQ=255)
                             aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTg                                                           <  1:1558585/50‑1 (MQ=255)
                             aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGt                                                        <  1:623521/53‑1 (MQ=255)
                               cTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                         >  1:3423575/1‑66 (MQ=255)
                                tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                           <  1:2408485/63‑1 (MQ=255)
                                tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                   >  1:1810435/1‑71 (MQ=255)
                                 ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                  >  1:3713919/1‑71 (MQ=255)
                                 ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                  >  1:3911701/1‑71 (MQ=255)
                                  tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCg                                 >  1:2566959/1‑71 (MQ=255)
                                  tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCg                                 >  1:3843048/1‑71 (MQ=255)
                                    tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGtt                               <  1:3654142/71‑1 (MQ=255)
                                      aTCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTAc                             >  1:1800792/1‑71 (MQ=255)
                                       tCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGt                                                        <  1:3306925/43‑1 (MQ=255)
                                       tCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGtt                               <  1:1603635/68‑1 (MQ=255)
                                         tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAAt                                        >  1:2204062/1‑57 (MQ=255)
                                         tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                           >  1:1432986/1‑70 (MQ=255)
                                           cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                           <  1:3747255/68‑1 (MQ=255)
                                           cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                         <  1:2727350/70‑1 (MQ=255)
                                           cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAg                        <  1:1151388/71‑1 (MQ=255)
                                             tAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                           >  1:1722944/1‑66 (MQ=255)
                                               aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                     <  1:3129073/70‑1 (MQ=255)
                                               aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                     <  1:2531258/70‑1 (MQ=255)
                                                gCCGTGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                   >  1:898899/1‑71 (MQ=255)
                                                gCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                     <  1:3566231/69‑1 (MQ=255)
                                                 ccATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACgg                  <  1:31784/71‑1 (MQ=255)
                                                 ccATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACgg                  <  1:3496383/71‑1 (MQ=255)
                                                  cATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGt                 <  1:606162/71‑1 (MQ=255)
                                                   aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                           <  1:2149913/44‑1 (MQ=255)
                                                   aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                <  1:3031687/71‑1 (MQ=255)
                                                    tGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGt                 >  1:883771/1‑69 (MQ=255)
                                                     gTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTAc                    <  1:272517/65‑1 (MQ=255)
                                                      tAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                           <  1:3144676/41‑1 (MQ=255)
                                                      tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt             <  1:1258645/71‑1 (MQ=255)
                                                      tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt             <  1:351408/71‑1 (MQ=255)
                                                       agagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACTGAAGTTACGGTTGAtt            >  1:2010645/1‑71 (MQ=255)
                                                       agagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAtt            >  1:3744116/1‑71 (MQ=255)
                                                        gagTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAttt           >  1:2922537/1‑71 (MQ=255)
                                                        gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAtt            <  1:2123761/70‑1 (MQ=255)
                                                        gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAtt            <  1:3854885/70‑1 (MQ=255)
                                                         agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACgg                  <  1:2750015/63‑1 (MQ=255)
                                                         agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTc          <  1:2960355/71‑1 (MQ=255)
                                                         agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTc          >  1:1255903/1‑71 (MQ=255)
                                                         agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTc          <  1:2596932/71‑1 (MQ=255)
                                                          gTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTc          >  1:1558291/1‑70 (MQ=255)
                                                          gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt             >  1:1976200/1‑67 (MQ=255)
                                                          gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg         <  1:3881830/71‑1 (MQ=255)
                                                          gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg         <  1:2235807/71‑1 (MQ=255)
                                                          gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg         <  1:922304/71‑1 (MQ=255)
                                                           ttCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                >  1:3804349/1‑63 (MQ=255)
                                                            tCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGaa       >  1:466830/1‑71 (MQ=255)
                                                             ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGaa       <  1:3432322/70‑1 (MQ=255)
                                                               atcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTAccg                  >  1:1370776/1‑55 (MQ=255)
                                                               atcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                  >  1:1768892/1‑41 (MQ=255)
                                                               atcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                  >  1:2138235/1‑41 (MQ=255)
                                                                tcatGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                   <  1:3080424/39‑1 (MQ=255)
                                                                 catTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATaccc  >  1:1453502/1‑69 (MQ=255)
                                                                 catGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGaa       >  1:442877/1‑66 (MQ=255)
                                                                  atGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTa                              >  1:2546357/1‑42 (MQ=255)
                                                                   tGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                >  1:1989752/1‑55 (MQ=255)
                                                                    |                                                                   
CGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACAC  >  minE/1933547‑1933682

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