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	1,933,627	G→A	14.3%	N272N (AAC→AAT)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,627	0	G	A	14.3%	286.9 / 32.3	112	N272N (AAC→AAT)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base G (49/47); new base A (8/8); total (57/55)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.64e-01

Only 100 of 114 total aligned reads displayed.

TTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCAC  >  minE/1933558‑1933694

ttCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGt                                                                    >  1:3195258/1‑71 (MQ=255)

  cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                                  >  1:3364686/1‑71 (MQ=255)

  cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                                  >  1:1169826/1‑71 (MQ=255)

  cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                                  >  1:777507/1‑71 (MQ=255)

     tCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTAt                                                                 <  1:607760/69‑1 (MQ=255)

     tCAGCTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATg                                                                <  1:2451787/70‑1 (MQ=255)

      cAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTa                                                                  <  1:3128010/67‑1 (MQ=255)

      cAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGAc                                                              >  1:3286051/1‑71 (MQ=255)

       aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                             >  1:2663657/1‑71 (MQ=255)

        gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                             >  1:1850673/1‑70 (MQ=255)

        gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGt                                                            <  1:1877632/71‑1 (MQ=255)

        gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGt                                                            <  1:3933959/71‑1 (MQ=255)

        gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGt                                                            <  1:3595634/71‑1 (MQ=255)

         cTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGt                                                                    <  1:290444/62‑1 (MQ=255)

            gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACgg                                                        <  1:3446948/71‑1 (MQ=255)

            gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                                         >  1:3195083/1‑70 (MQ=255)

            gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                                         >  1:1757474/1‑70 (MQ=255)

            gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                                         <  1:1206485/70‑1 (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)

                aGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                     >  1:1231389/1‑70 (MQ=255)

                  aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTggg                                                                     >  1:1431123/1‑52 (MQ=255)

                  aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTggg                                                                     >  1:2315991/1‑52 (MQ=255)

                  aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                                       <  1:2270945/66‑1 (MQ=255)

                    cTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                     >  1:3423575/1‑66 (MQ=255)

                     tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                               >  1:1431638/1‑71 (MQ=255)

                     tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                               >  1:1810435/1‑71 (MQ=255)

                      ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                              >  1:3911701/1‑71 (MQ=255)

                      ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                              >  1:3648812/1‑71 (MQ=255)

                      ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                              >  1:3713919/1‑71 (MQ=255)

                       tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCg                                             >  1:2566959/1‑71 (MQ=255)

                       tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCg                                             >  1:3843048/1‑71 (MQ=255)

                         tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGtt                                           <  1:3654142/71‑1 (MQ=255)

                            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)

                                cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                                       <  1:3763661/68‑1 (MQ=255)

                                cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                                     <  1:2727350/70‑1 (MQ=255)

                                cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAg                                    <  1:1151388/71‑1 (MQ=255)

                                  tAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                                       >  1:1722944/1‑66 (MQ=255)

                                    aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                                 <  1:2531258/70‑1 (MQ=255)

                                    aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                                 <  1:3129073/70‑1 (MQ=255)

                                     gCCGTGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                               >  1:898899/1‑71 (MQ=255)

                                     gCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                                 <  1:3566231/69‑1 (MQ=255)

                                     gCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACg                               >  1:2009827/1‑71 (MQ=255)

                                      ccATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACgg                              <  1:3496383/71‑1 (MQ=255)

                                      ccATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACgg                              <  1:31784/71‑1 (MQ=255)

                                       cATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGt                             >  1:2432281/1‑71 (MQ=255)

                                       cATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGt                             <  1:606162/71‑1 (MQ=255)

                                        aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                                       <  1:2149913/44‑1 (MQ=255)

                                        aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                            <  1:3031687/71‑1 (MQ=255)

                                         tGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                                       <  1:1944385/43‑1 (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)

                                            agagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAtt                        >  1:1596805/1‑71 (MQ=255)

                                            agagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAtt                        >  1:3744116/1‑71 (MQ=255)

                                             gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAtt                        <  1:2123761/70‑1 (MQ=255)

                                             gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAtt                        <  1:3854885/70‑1 (MQ=255)

                                              agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACgg                              <  1:2750015/63‑1 (MQ=255)

                                              agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACgg                              <  1:2640157/63‑1 (MQ=255)

                                              agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTc                      <  1:2960355/71‑1 (MQ=255)

                                              agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTc                      >  1:1255903/1‑71 (MQ=255)

                                              agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTc                      <  1:2596932/71‑1 (MQ=255)

                                               gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                         >  1:1976200/1‑67 (MQ=255)

                                               gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                     <  1:922304/71‑1 (MQ=255)

                                               gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                     <  1:3881830/71‑1 (MQ=255)

                                               gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                     <  1:2235807/71‑1 (MQ=255)

                                                ttCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                            >  1:3804349/1‑63 (MQ=255)

                                                ttCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                     >  1:3181857/1‑70 (MQ=255)

                                                ttCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                     >  1:1794347/1‑70 (MQ=255)

                                                 tCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGaa                   >  1:466830/1‑71 (MQ=255)

                                                  ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGaa                   <  1:3432322/70‑1 (MQ=255)

                                                    atcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                              >  1:1768892/1‑41 (MQ=255)

                                                    atcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                              >  1:2138235/1‑41 (MQ=255)

                                                    atcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                              >  1:767046/1‑41 (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)

                                                          gTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTc          >  1:1442235/1‑71 (MQ=255)

                                                           tGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGaa                   >  1:3324809/1‑61 (MQ=255)

                                                           tGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCg         <  1:249991/71‑1 (MQ=255)

                                                           tGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCg         <  1:2740201/71‑1 (MQ=255)

                                                           tGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCg         <  1:3220104/71‑1 (MQ=255)

                                                             aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCg         >  1:3250418/1‑69 (MQ=255)

                                                             aaCTCAGGATTATGGCGAAGAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGaa                   >  1:1545477/1‑59 (MQ=255)

                                                              aCTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCaaaa      <  1:3645128/71‑2 (MQ=255)

                                                               ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc     >  1:3504748/1‑71 (MQ=255)

                                                               ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc     <  1:843694/71‑1 (MQ=255)

                                                               ctcaGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGa                    >  1:1400569/1‑56 (MQ=255)

                                                                 ctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGcca   >  1:1724942/1‑71 (MQ=255)

                                                                  tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccac  >  1:3473895/1‑71 (MQ=255)

TTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCAC  >  minE/1933558‑1933694

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