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	1,933,633	A→G	14.3%	R270R (CGT→CGC)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,633	0	A	G	14.3%	273.7 / 33.0	112	R270R (CGT→CGC)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base A (49/47); new base G (9/7); total (58/54)
Fisher's exact test for biased strand distribution p-value = 7.90e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.28e-01

Only 100 of 113 total aligned reads displayed.

CAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACC  >  minE/1933564‑1933702

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

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

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

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

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

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

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

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

      gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                                                 <  1:1206485/70‑1 (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)

          aGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                             >  1:1231389/1‑70 (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                                                      >  1:3648812/1‑71 (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)

                     aTCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTAc                                                 >  1:1800792/1‑71 (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                                         <  1:3129073/70‑1 (MQ=255)

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

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

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

                                ccATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACgg                                      <  1:3496383/71‑1 (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                                    <  1:3346568/71‑1 (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                                 <  1:351408/71‑1 (MQ=255)

                                     tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                 <  1:1258645/71‑1 (MQ=255)

                                      agagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACTGAAGTTACGGTTGAtt                                >  1:2010645/1‑71 (MQ=255)

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

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

                                       gagTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAttt                               >  1:2922537/1‑71 (MQ=255)

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

                                       gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAtt                                <  1:3868686/70‑1 (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)

                                         gTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTc                              >  1:1558291/1‑70 (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)

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

                                            ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTAc                                                 >  1:92746/1‑48 (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)

                                                catGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGaa                           >  1:442877/1‑66 (MQ=255)

                                                 atGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTa                                                  >  1:2546357/1‑42 (MQ=255)

                                                  ttgTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCgt                    <  1:2639753/69‑2 (MQ=255)

                                                  tGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                    >  1:1989752/1‑55 (MQ=255)

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

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

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

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

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

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

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

                                                         ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc             >  1:3670150/1‑71 (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)

                                                                ttATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCgcctac      <  1:922462/71‑1 (MQ=255)

                                                                ttATGACGTACGGAAATACCTTCGTTAGGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCaccaac      <  1:1063126/71‑1 (MQ=255)

                                                                 tATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGa                            >  1:374608/1‑48 (MQ=37)

                                                                 tATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATac                        >  1:2349790/1‑52 (MQ=255)

                                                                   tGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAaccac   <  1:1300805/71‑1 (MQ=255)

                                                                    gACGTACGGATATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa               >  1:1279412/1‑58 (MQ=255)

                                                                    gACGTACGGATATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa               >  1:1274816/1‑58 (MQ=255)

                                                                    gACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAtt                                >  1:782713/1‑41 (MQ=255)

                                                                     aCGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAaccacc  <  1:3086059/70‑1 (MQ=255)

CAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACC  >  minE/1933564‑1933702

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