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	2,571,350	G→A	27.1%	intergenic (+118/‑1661)	yibH → / → ysaB	hypothetical protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,571,350	0	G	A	27.1%	221.7 / 90.6	140	intergenic (+118/‑1661)	yibH/ysaB	hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand): ref base G (36/66); new base A (20/18); total (56/84)
Fisher's exact test for biased strand distribution p-value = 8.09e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01

Only 100 of 144 total aligned reads displayed.

GCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCG  >  minE/2571286‑2571420

 cATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGtgtg                                                                  <  1:4267138/70‑1 (MQ=255)

   tatTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGctc                                                               >  1:2722097/1‑71 (MQ=255)

   tatTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGctc                                                               >  1:2352113/1‑71 (MQ=255)

    atTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGctct                                                              >  1:4021442/1‑71 (MQ=255)

    atTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGctct                                                              >  1:5669681/1‑71 (MQ=255)

         ttCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATg                                                                        <  1:5365132/56‑1 (MQ=255)

           cATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGa                                                                       <  1:1926925/55‑1 (MQ=255)

            aTTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGAt                                                      <  1:327776/71‑1 (MQ=255)

             ttAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGAtt                                                     >  1:598891/1‑71 (MQ=255)

             ttAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGAtt                                                     >  1:4836689/1‑71 (MQ=255)

              tAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGTAtt                                                     <  1:225473/70‑1 (MQ=255)

               aGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGAttt                                                    <  1:2451652/70‑1 (MQ=255)

                     gatgatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATcc                                             <  1:1022779/71‑1 (MQ=255)

                      atgatTTTTCCTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATc                                              >  1:3425292/1‑71 (MQ=255)

                      atgatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCAtt                                                          <  1:1042987/57‑1 (MQ=255)

                        gatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATcc                                             <  1:3671395/68‑1 (MQ=255)

                        gatTTTA‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTc                                          >  1:734041/1‑71 (MQ=255)

                         atTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCtctc                                                             <  1:2802838/51‑1 (MQ=255)

                          ttttt‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGtgtg                                                                  <  1:4008930/45‑1 (MQ=255)

                          ttttt‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGtgtg                                                                  <  1:720328/45‑1 (MQ=255)

                          ttttt‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCtt                                        <  1:119029/71‑1 (MQ=255)

                          ttttc‑CTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCt                                         >  1:1490904/1‑71 (MQ=255)

                           tttc‑CTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCt                                         >  1:1847902/1‑70 (MQ=255)

                            ttt‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑CGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGt                                      >  1:5527992/1‑71 (MQ=255)

                             ttccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCtt                                        <  1:1754179/67‑1 (MQ=255)

                             tt‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTa                                                >  1:2233766/1‑60 (MQ=255)

                              tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                                       <  1:327799/68‑1 (MQ=255)

                              tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                                       <  1:529762/68‑1 (MQ=255)

                              tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                                       <  1:2989061/68‑1 (MQ=255)

                              tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                                       <  1:2353435/68‑1 (MQ=255)

                              tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                                       <  1:5635651/68‑1 (MQ=255)

                              tccTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                                       <  1:2033084/68‑1 (MQ=255)

                              tccTTTAATATCCAGCATGTTAAGAAGTTC‑TGGGATAGCTGTAATCTCATTAGATTTCTCATCCGTCTTg                                       <  1:1522883/68‑1 (MQ=255)

                              tccTTTAATATCCAGCATGTTAAGAAGTTC‑TGGGATAGCTGTAATCTCATTAGATTTCTCATCCGTCTTg                                       <  1:4254032/68‑1 (MQ=255)

                              tccTTTAATATCCAGCATGTTAAGAAGTTC‑TGGGATAGCTGTAATCTCATTAGATTTCTCATCCGTCTTg                                       <  1:4309757/68‑1 (MQ=255)

                              t‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGtt                                     <  1:5695919/70‑1 (MQ=255)

                                cTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGtt                                     <  1:5031128/69‑1 (MQ=255)

                                cTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                                   >  1:4191709/1‑71 (MQ=255)

                                cTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATc                                    >  1:1524999/1‑71 (MQ=255)

                                cTTTAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATc                                    >  1:4842888/1‑71 (MQ=255)

                                   tAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGcc                                >  1:837254/1‑71 (MQ=255)

                                   tAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGcc                                >  1:109743/1‑71 (MQ=255)

                                   tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTa                                                >  1:2221760/1‑56 (MQ=255)

                                   tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCt                                   >  1:3759709/1‑69 (MQ=255)

                                   tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTGc                                 >  1:5528958/1‑71 (MQ=255)

                                   tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTGc                                 >  1:4743825/1‑71 (MQ=255)

                                   tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTGc                                 >  1:3672754/1‑71 (MQ=255)

                                   tAATATCCAGCATGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTGc                                 >  1:2674080/1‑71 (MQ=255)

                                    aaTATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                                   <  1:2164482/67‑1 (MQ=255)

                                     atatTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCg                               <  1:1877765/70‑1 (MQ=255)

                                        ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATc                                              >  1:4038816/1‑52 (MQ=255)

                                        ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATc                                              >  1:5095556/1‑52 (MQ=255)

                                        ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                                   <  1:1611576/63‑1 (MQ=255)

                                        ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                                   <  1:1716614/63‑1 (MQ=255)

                                        ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAgt                           <  1:5305193/71‑2 (MQ=255)

                                        ttCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAg                            <  1:1175257/70‑1 (MQ=255)

                                          cATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGAt                         >  1:2803109/1‑71 (MQ=255)

                                           agcaTGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATc                                    >  1:5207379/4‑60 (MQ=255)

                                           agcaTGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATc                                    >  1:1731674/4‑60 (MQ=255)

                                           aTTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATcc                                             >  1:482338/1‑50 (MQ=255)

                                           aTTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGAt                         <  1:3930766/70‑1 (MQ=255)

                                           aTTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATg                        <  1:4985725/71‑1 (MQ=255)

                                           aTTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTATATCCGTCTTGTTCTGCCGCAGGAt                         <  1:5026670/70‑1 (MQ=255)

                                            ttATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTa                                                <  1:4250179/46‑1 (MQ=255)

                                            ttATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGtt                                     <  1:4167997/57‑1 (MQ=255)

                                            ttATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGtt                                     <  1:127074/57‑1 (MQ=255)

                                               tGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGAc                    <  1:4784700/71‑1 (MQ=255)

                                               tGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                                       <  1:380857/53‑1 (MQ=255)

                                               tGTTAAGAAGTTCAG‑GGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg                                       <  1:4295897/53‑1 (MQ=255)

                                                 ttAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACt                   <  1:596909/70‑1 (MQ=255)

                                                 ttAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACt                   <  1:3411049/70‑1 (MQ=255)

                                                  taataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCt                                         >  1:479064/1‑47 (MQ=255)

                                                  taataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCt                                   >  1:3661204/1‑53 (MQ=255)

                                                  taataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTg                                  >  1:4344942/1‑54 (MQ=255)

                                                  taataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACta                  >  1:4223154/1‑70 (MQ=255)

                                                    ataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCg                                            <  1:4732441/42‑1 (MQ=255)

                                                    ataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGt                                      <  1:4440026/48‑1 (MQ=255)

                                                    ataaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACtata                >  1:2060905/1‑70 (MQ=255)

                                                      aaGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATga                       >  1:246516/1‑61 (MQ=255)

                                                        gTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGAc                    <  1:153790/62‑1 (MQ=255)

                                                           c‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcgtc         <  1:5004618/70‑1 (MQ=255)

                                                           c‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcgtc         <  1:5097885/70‑1 (MQ=255)

                                                           c‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcgtc         <  1:3511341/70‑1 (MQ=255)

                                                             t‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcgtc         <  1:3932380/69‑1 (MQ=255)

                                                             t‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcgtc         <  1:774512/69‑1 (MQ=255)

                                                               ggATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTg                                       >  1:1598337/1‑38 (MQ=255)

                                                                gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGAt                         >  1:1823475/1‑51 (MQ=255)

                                                                gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGAt                         >  1:2566562/1‑51 (MQ=255)

                                                                gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcgtc         <  1:5436525/67‑1 (MQ=255)

                                                                gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCgag      <  1:3413843/70‑1 (MQ=255)

                                                                gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCga       <  1:4358569/69‑1 (MQ=255)

                                                                gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCga       <  1:2161337/69‑1 (MQ=255)

                                                                gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCga       <  1:4149641/69‑1 (MQ=255)

                                                                gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCga       <  1:4143204/69‑1 (MQ=255)

                                                                  tGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAg                            <  1:3844992/46‑1 (MQ=255)

                                                                  tGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACa              <  1:4685267/60‑1 (MQ=255)

                                                                  tGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACa              <  1:1392556/60‑1 (MQ=255)

                                                                  tGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACa              <  1:3179875/60‑1 (MQ=255)

                                                                   gAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCg  >  1:463623/1‑71 (MQ=255)

                                                                   gAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCg  >  1:1537116/1‑71 (MQ=255)

GCATATTACTTCATTAGCTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑T‑GGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCG  >  minE/2571286‑2571420

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