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	835,820	T→C	19.6%	L180L (TTG→CTG)	narH →	nitrate reductase 1, beta (Fe‑S) subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	835,820	0	T	C	19.6%	211.6 / 46.7	102	L180L (TTG→CTG)	narH	nitrate reductase 1, beta (Fe‑S) subunit
Reads supporting (aligned to +/- strand): ref base T (38/44); new base C (13/7); total (51/51)
Fisher's exact test for biased strand distribution p-value = 2.12e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.87e-01

Only 100 of 102 total aligned reads displayed.

AAGACAAGAACTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATT  >  minE/835752‑835885

 aGACAAGAACTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGc                                                                 >  1:1473338/1‑71 (MQ=255)

    cAAGAACTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCcgc                                                              <  1:3433131/71‑1 (MQ=255)

      aGAACTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGcc                                                                >  1:2299302/1‑67 (MQ=255)

      aGAACTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGcc                                                                >  1:1396351/1‑67 (MQ=255)

      aGAACTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCgcgc                                                            >  1:3482164/1‑71 (MQ=255)

      aGAACTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCgcgc                                                            >  1:1582637/1‑71 (MQ=255)

       gAACTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTg                                                                  <  1:3467917/64‑1 (MQ=255)

       caaCTTCGAGGCCATGCAAAAGGAGATGTACGGGCAGTTTGAAAACACCTTCATGATGTACCTGCCGCGcc                                                           >  1:2392205/2‑71 (MQ=255)

       caaCTTCGAGGCCATGCAAAAGGAGATGTACGCGCAGTTTGAAAACACCTTCATGATGTACCTGCCGCGcc                                                           >  1:2376532/2‑71 (MQ=255)

        aaCTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCt                                                          <  1:1312012/71‑1 (MQ=255)

        aaCTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCt                                                          <  1:2457881/71‑1 (MQ=255)

         aCTTCGAGGCCATGCAAAAGGAGATGTACGGGCAGTTTGACAACACCTTCATGATGTACCTGCCGCGCCtg                                                         <  1:3120492/71‑1 (MQ=255)

         aCTTCGAGGCCATGCAAAAGGAGATGTACGGGCAGTTTGAAAACACCTTCATGATGTACCTGCCGCGCCtg                                                         >  1:614351/1‑71 (MQ=255)

         aCTTCGAGGCCATGCAAAAGGAGATGTACGGGCAGTTTGAAAACACCTTCATGATGTACCTGCCGCGCCtg                                                         <  1:2015105/71‑1 (MQ=255)

         aCTTCGAGGCCATGCAAAAGGAGATGTACGGGCAGTTTGAAAACACCTTCATGATGTACCTGCCGCGCCtg                                                         >  1:1546133/1‑71 (MQ=255)

           ttCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCcgc                                                              <  1:1348976/64‑1 (MQ=255)

             cGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGc                                                      >  1:960591/1‑70 (MQ=255)

              gACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCg                                                     <  1:3804234/70‑1 (MQ=255)

               acaacaTCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGc                                                      <  1:3075465/68‑1 (MQ=255)

                ggccaTGCAAAAGGAGATGTACGGGCAGTTTGAAAACACCTTCATGATGTACCTGCCGCGCCTGTGCGaa                                                   >  1:403939/4‑70 (MQ=255)

                caacaTCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAac                                                  <  1:3166509/71‑1 (MQ=255)

                     tCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCgcgc                                                            <  1:1159264/56‑1 (MQ=255)

                     tCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGc                                             >  1:1714013/1‑71 (MQ=255)

                     tCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGc                                             >  1:3526955/1‑71 (MQ=255)

                     tCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGc                                             >  1:2269706/1‑71 (MQ=255)

                      ccAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGcc                                            >  1:304097/1‑71 (MQ=255)

                      ccAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGcc                                            >  1:903867/1‑71 (MQ=255)

                       cAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCt                                           >  1:608740/1‑71 (MQ=255)

                        aGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTg                                          <  1:945051/71‑1 (MQ=255)

                        aGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTg                                          <  1:940361/71‑1 (MQ=255)

                        aGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTg                                          <  1:489827/71‑1 (MQ=255)

                        aGAAGGCGAGGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCt                                           >  1:3215519/1‑70 (MQ=255)

                         gAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGa                                         <  1:374529/71‑1 (MQ=255)

                           aGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑c                                      >  1:1848602/1‑71 (MQ=255)

                           aGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑c                                      <  1:135266/71‑1 (MQ=255)

                             gCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑ccc                                    <  1:3876236/71‑1 (MQ=255)

                              cGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCg                                   >  1:3273268/1‑71 (MQ=255)

                               gATGTACGGGCAGTTTGAAAACACCTTCATGATGTACCTGCCGCGCCTGTGCGAaca                                                 >  1:3508944/1‑57 (MQ=255)

                                 tGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGc                                             >  1:937686/1‑59 (MQ=255)

                                 tGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGc                                             >  1:2309667/1‑59 (MQ=255)

                                 tGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCa                                >  1:2271441/1‑71 (MQ=255)

                                 tGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCa                                >  1:2081803/1‑71 (MQ=255)

                                   tataGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAac                                                  >  1:2661842/1‑52 (MQ=255)

                                   tataGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAtg                              >  1:2041892/1‑71 (MQ=255)

                                   tataGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAt                               <  1:1593906/70‑1 (MQ=255)

                                     taGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAtgtg                            <  1:3181309/71‑1 (MQ=255)

                                     taGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAtgtg                            <  1:1472040/71‑1 (MQ=255)

                                     taGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAtgtg                            >  1:3336679/1‑71 (MQ=255)

                                     taGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAtgt                             <  1:3621570/70‑1 (MQ=255)

                                      aGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAtgtg                            <  1:3689200/70‑1 (MQ=255)

                                       gCCAGTTCGAAAACACCTTCATGATGTATTTGCcg                                                               >  1:1766361/1‑35 (MQ=255)

                                       gCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAtgtgt                           <  1:3018493/70‑1 (MQ=255)

                                       gCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAtgtgt                           <  1:3867308/70‑1 (MQ=255)

                                        ccAGTTCGAAAACACCTTCATGATGTATTTGCCgcgc                                                            <  1:3935445/37‑1 (MQ=255)

                                        ccAGTTCGAAAACACCTTCATGATGTATTTGCCgcgc                                                            <  1:2860980/37‑1 (MQ=255)

                                        ccAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTgg                         <  1:3039361/71‑1 (MQ=255)

                                         cAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGc                        <  1:3913462/71‑1 (MQ=255)

                                          aGTTTGAAAACACCTTCATGATGTACCTGCCGCGCCTGTGCGAACACTGCCTCAA‑tccca                                  >  1:1090451/1‑58 (MQ=255)

                                          aGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTTCGAACACTGCCTGAA‑CCCGGCATGTGTGGc                        >  1:349795/1‑70 (MQ=255)

                                          aGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑cc                                     >  1:3218393/1‑57 (MQ=255)

                                          aGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGc                        >  1:2971718/1‑70 (MQ=255)

                                          aGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGc                        >  1:289658/1‑70 (MQ=255)

                                           gTTTGAAAACACCTTCATGATGTACCTGCCGCGCCTGTGCGAACACt                                               <  1:2882346/47‑1 (MQ=38)

                                           gTTTGAAAACACCTTCATGATGTACCTGCCGCGCCTGTGCGAACACt                                               <  1:1907587/47‑1 (MQ=38)

                                            ttCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGAc                     <  1:3779713/71‑1 (MQ=255)

                                            ttCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGAc                     <  1:1829041/71‑1 (MQ=255)

                                             tCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCg                                                     <  1:3163158/39‑1 (MQ=255)

                                             tCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCgg                                  >  1:2069830/1‑57 (MQ=255)

                                              tgAAAACACCTTCATTATGTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCt                   >  1:741533/2‑71 (MQ=255)

                                              tgAAAACACCTTCATGATGTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCt                   >  1:2829823/2‑71 (MQ=255)

                                              cGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGAcc                    <  1:2028352/70‑1 (MQ=255)

                                              cGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGAcc                    <  1:3935453/70‑1 (MQ=255)

                                               gAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGaa                                                   <  1:3476178/39‑1 (MQ=255)

                                               gAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCg                       <  1:333273/66‑1 (MQ=255)

                                               gAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCt                   <  1:834442/70‑1 (MQ=255)

                                                aaaaCACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCgg                                  <  1:1960819/54‑1 (MQ=255)

                                                aaaaCACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGc                 <  1:2907425/71‑1 (MQ=255)

                                                aaaaCACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGc                 >  1:1628771/1‑71 (MQ=255)

                                                 aaaCACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGAc                     >  1:3534493/1‑66 (MQ=255)

                                                  aaCACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGc                                 >  1:2851102/1‑53 (MQ=255)

                                                   acacCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGccc               >  1:1145245/1‑70 (MQ=255)

                                                     acCTTCATGATGTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAg            >  1:1576109/1‑71 (MQ=255)

                                                       cTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCg          <  1:3489727/71‑1 (MQ=255)

                                                       cTTCATGATGTACCTGCCTCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCg          <  1:3854788/71‑1 (MQ=255)

                                                        ttCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCg                       <  1:961350/57‑1 (MQ=255)

                                                         tCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGt        >  1:740119/1‑71 (MQ=255)

                                                         tCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGt        >  1:2237282/1‑71 (MQ=255)

                                                          cATGATGTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCggcg       >  1:1591014/1‑69 (MQ=255)

                                                           atgatgTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCgg                                  >  1:875595/1‑43 (MQ=255)

                                                           atgatgTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCggcg       <  1:231505/70‑3 (MQ=255)

                                                            tgatgTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCg                       <  1:2988497/53‑1 (MQ=255)

                                                            tgatgTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGGGGCGACCTGCCCAAGCGgcgc      <  1:2500398/70‑1 (MQ=255)

                                                              atgTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGc                                 <  1:2487162/41‑1 (MQ=255)

                                                              atgTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGAc                     >  1:3899069/1‑53 (MQ=255)

                                                              atgTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGAt   <  1:2439608/71‑1 (MQ=255)

                                                              atgTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCgg         >  1:2599389/1‑65 (MQ=255)

                                                              atgTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCGGCGCTAt   >  1:2411484/1‑71 (MQ=255)

                                                               tgTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGAtt  <  1:2838530/71‑1 (MQ=255)

                                                                 tATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCAtgtg                            <  1:181752/43‑1 (MQ=255)

                                                                 tATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCg          <  1:3267660/61‑1 (MQ=255)

AAGACAAGAACTTCGACAACATCCAGAAGGCGATGTATAGCCAGTTCGAAAACACCTTCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATT  >  minE/835752‑835885

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A