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	1,933,969	G→A	39.6%	H158H (CAC→CAT)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,969	0	G	A	39.6%	74.4 / 109.2	106	H158H (CAC→CAT)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base G (27/37); new base A (18/24); total (45/61)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01

Only 100 of 106 total aligned reads displayed.

GCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGACAG  >  minE/1933900‑1934037

gCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGt                                                                     >  1:3136849/1‑71 (MQ=255)

gCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGt                                                                     >  1:1441388/1‑71 (MQ=255)

gCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGt                                                                     >  1:1526006/1‑71 (MQ=255)

gCGGGATTCATCGTT‑GAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTg                                                                    >  1:5055691/1‑71 (MQ=255)

  gggATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTgg                                                                   <  1:2935649/71‑1 (MQ=255)

  gggATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTgg                                                                   <  1:397563/71‑1 (MQ=255)

  gggATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTgg                                                                   <  1:4292694/71‑1 (MQ=255)

   ggATTTATCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGa                                                                  <  1:94396/71‑1 (MQ=255)

   ggATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGa                                                                  <  1:5435180/71‑1 (MQ=255)

        taTCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAAttt                                                              <  1:1652139/69‑1 (MQ=255)

        taTCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAAttt                                                              >  1:5341320/2‑70 (MQ=255)

         aTCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTAt                                                            <  1:2347465/71‑1 (MQ=255)

          tCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATc                                                           >  1:5022455/1‑71 (MQ=255)

          tCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATc                                                           >  1:1704494/1‑71 (MQ=255)

          tCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATc                                                           <  1:5118446/71‑1 (MQ=255)

           cGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATc                                                           <  1:4640566/70‑1 (MQ=255)

            gTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCg                                                         >  1:4588203/1‑71 (MQ=255)

            gTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCg                                                         >  1:2002469/1‑71 (MQ=255)

             ttGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCgg                                                        <  1:3679940/71‑1 (MQ=255)

               ggAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCgg                                                        >  1:2110155/1‑69 (MQ=255)

                  gatgagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCg                                                   <  1:1631048/71‑1 (MQ=255)

                  gatgagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCg                                                   <  1:468999/71‑1 (MQ=255)

                  gatgagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCg                                                   <  1:3141770/71‑1 (MQ=255)

                  gatgagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCg                                                   <  1:4376784/71‑1 (MQ=255)

                     gagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa                                                 >  1:4377217/1‑70 (MQ=255)

                     gagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa                                                 >  1:3111569/1‑70 (MQ=255)

                     gagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGAc                                                >  1:2646964/1‑71 (MQ=255)

                     gagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGAc                                                >  1:2724307/1‑71 (MQ=255)

                      agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGAc                                                <  1:570914/70‑1 (MQ=255)

                        atCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTg                                                                    >  1:1639718/1‑48 (MQ=255)

                        atCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCa                                                      <  1:605297/62‑1 (MQ=255)

                        atCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCa                                                      >  1:1219607/1‑62 (MQ=255)

                        atCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCa                                                      <  1:2942886/62‑1 (MQ=255)

                        atCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGc                                              >  1:3726896/1‑70 (MQ=255)

                          cGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGt                                                                     >  1:5324149/1‑45 (MQ=255)

                          cGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGt                                           >  1:5245815/1‑71 (MQ=255)

                          cGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGt                                           >  1:462623/1‑71 (MQ=255)

                          cGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGt                                           >  1:2749457/1‑71 (MQ=255)

                          cGAGATAACGCTGACGAT‑‑CGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGc                                         >  1:421839/1‑71 (MQ=255)

                            agaTAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGc                                         <  1:2135753/71‑1 (MQ=255)

                              aTAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTgta                                                                  <  1:1407849/44‑3 (MQ=255)

                              aTAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGa                                                                  <  1:892463/44‑1 (MQ=255)

                               tAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGa                                                                  <  1:4025334/43‑1 (MQ=255)

                               tAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTAt                                                            <  1:1386521/49‑1 (MQ=255)

                                aaCGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGaa                                                                 >  1:22073/1‑43 (MQ=255)

                                aaCGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCtt                                       >  1:4850361/1‑69 (MQ=255)

                                aaCGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCtt                                       >  1:3160493/1‑69 (MQ=255)

                                 aCGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCtttag                                    <  1:3315533/71‑3 (MQ=255)

                                 aCGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATcc                                                          >  1:2591524/1‑49 (MQ=255)

                                   gttGACGATAACGGACTTCCTGATCCTGCAGACCATGGGATTTATCTGGTAAAGGACGTAGTGCTTTAGTc                                  <  1:880468/69‑1 (MQ=255)

                                    ttGACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCttta                                     <  1:4037612/66‑2 (MQ=255)

                                     tGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGa                                                                  <  1:3266450/37‑1 (MQ=255)

                                     tGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGa                                                                  <  1:1782687/37‑1 (MQ=255)

                                      gACGATAACGGACTTCCTGATCCTGCAGACCATGGAAttt                                                              >  1:4853913/1‑40 (MQ=255)

                                      gACGATAACGGACTTCCTGATCCTGCAGACCATGGAAttt                                                              >  1:243451/1‑40 (MQ=255)

                                      gACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTcag                                >  1:460533/1‑70 (MQ=255)

                                      gACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTcag                                <  1:408624/70‑1 (MQ=255)

                                      gACGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTcag                                >  1:1287451/1‑70 (MQ=255)

                                       aCGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCgg                                                  <  1:2177350/51‑1 (MQ=255)

                                       aCGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCgg                                                  <  1:3369224/51‑1 (MQ=255)

                                       aCGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTcagca                              <  1:5361150/71‑1 (MQ=255)

                                       aCGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTcagca                              <  1:871873/71‑1 (MQ=255)

                                       aCGATAACGGACTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTcagc                               <  1:4004532/70‑1 (MQ=255)

                                          aTAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACg                                               <  1:3778771/51‑1 (MQ=255)

                                          aTAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGc                                         <  1:4950430/57‑1 (MQ=255)

                                             gcgcgcTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGc                         <  1:3250009/70‑1 (MQ=255)

                                               gcgcTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAAc                      >  1:3602980/1‑71 (MQ=255)

                                                gacTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCt                     <  1:3181762/69‑1 (MQ=255)

                                                gacTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCt                     <  1:4835933/69‑1 (MQ=255)

                                                cgcTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGt                                   >  1:2058026/1‑57 (MQ=255)

                                                cgcTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACt                     >  1:1744131/1‑71 (MQ=255)

                                                 gcTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTc                    <  1:3085453/71‑1 (MQ=255)

                                                 acTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTcag                                <  1:161760/58‑1 (MQ=255)

                                                 acTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTcag                                <  1:3137036/58‑1 (MQ=255)

                                                  cTTCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCACCt                     >  1:1213546/1‑69 (MQ=255)

                                                   ttCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGgcgc                         <  1:4853049/64‑1 (MQ=255)

                                                   ttCCTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGgcgc                         <  1:3471179/64‑1 (MQ=255)

                                                    tCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCt                                        <  1:806994/48‑1 (MQ=255)

                                                     ccTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCttta                                     >  1:5470677/1‑49 (MQ=255)

                                                     ccTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTcag                  <  1:1144142/69‑3 (MQ=255)

                                                     ccTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTCAGta                >  1:5676856/1‑70 (MQ=255)

                                                     ccTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGAc                           >  1:94270/1‑60 (MQ=255)

                                                      cTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTca                   >  1:4077343/1‑66 (MQ=255)

                                                      cTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTCAGtac               <  1:1974970/71‑3 (MQ=255)

                                                      cTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTCAGtac               <  1:4136137/71‑3 (MQ=255)

                                                      cTGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTCAGta                <  1:4003635/70‑2 (MQ=255)

                                                       tGATCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCa                        >  1:2312386/1‑61 (MQ=255)

                                                       tGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTg                >  1:285824/1‑69 (MQ=255)

                                                         aTCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTCAGTACAGt            <  1:4825226/71‑1 (MQ=255)

                                                         aTCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTgg                                    <  1:2292799/47‑1 (MQ=255)

                                                         aTCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGGGCAGt            >  1:1274071/1‑71 (MQ=255)

                                                          tCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTCAGTACAGt            >  1:2325026/1‑70 (MQ=255)

                                                          tCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTCAGTACAGt            >  1:3631352/1‑70 (MQ=255)

                                                          tCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTCAGTACAGt            >  1:4916423/1‑70 (MQ=255)

                                                          tCCTGCAGACCATGGAATTTATCTGGTAAAGGACGTAGTGCTTTAGTCAGCAGGCGCAGCTCAGTACAGTg           <  1:4174745/71‑1 (MQ=255)

                                                          tCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTg           <  1:3500613/71‑1 (MQ=255)

                                                          tCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTg           <  1:1761591/71‑1 (MQ=255)

                                                          tCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGAGCAGTg           <  1:735382/71‑1 (MQ=255)

                                                                   ccGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGACAg  <  1:4668860/71‑1 (MQ=255)

                                                                    cGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGACa   <  1:4822578/69‑1 (MQ=255)

GCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGACAG  >  minE/1933900‑1934037

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