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	1,933,099	G→A	43.0%	D448D (GAC→GAT) ‡	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,099	0	G	A	43.0%	87.5 / 198.1	172	D448D (GAC→GAT) ‡	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base G (47/51); new base A (38/36); total (85/87)
Fisher's exact test for biased strand distribution p-value = 7.58e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.46e-01

Only 100 of 172 total aligned reads displayed.

GGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCG  >  minE/1933031‑1933168

ggcggTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTc                                                                     >  1:5089658/1‑71 (MQ=255)

ggcggTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCCTCGTCGTCACCTGCGTc                                                                     >  1:2235179/1‑71 (MQ=255)

 gcggTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCt                                                                    <  1:132381/71‑1 (MQ=255)

    gTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTc                                                                 <  1:4807766/71‑1 (MQ=255)

    gTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTc                                                                 <  1:3262295/71‑1 (MQ=255)

      aaGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTcgc                                                               >  1:5192428/1‑71 (MQ=255)

      aaGCCAAGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTcgc                                                               >  1:2210741/1‑71 (MQ=255)

         ccATGTTCCAGTGCGGTGACATAATCTTCGTCGTAGAACATCGCTTCGTCGTCACCTGCATCt                                                                    <  1:1116696/63‑1 (MQ=255)

           aTGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGAGTCTTTCGCGGCaa                                                          >  1:226970/1‑71 (MQ=255)

            tGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCt                                                                    <  1:3339026/60‑1 (MQ=255)

            tGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTcgcg                                                              <  1:1839057/66‑1 (MQ=255)

              ttCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCt                                                       >  1:3531122/1‑71 (MQ=255)

              ttCCAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCtttag                                                                >  1:3308526/1‑60 (MQ=255)

              ttCCAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCtttag                                                                >  1:1858649/1‑60 (MQ=255)

              ttCCAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCtttag                                                                >  1:2725835/1‑60 (MQ=255)

                ccAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTagc                                                               >  1:2511602/1‑61 (MQ=255)

                ccAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgt                                                     >  1:1492064/1‑70 (MQ=255)

                ccAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgt                                                     >  1:4727515/1‑70 (MQ=255)

                ccAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgt                                                     >  1:1089950/1‑70 (MQ=255)

                ccAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgt                                                     >  1:3222538/1‑70 (MQ=255)

                 cAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgtt                                                    <  1:691635/71‑3 (MQ=255)

                 cAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgtt                                                    <  1:2131891/71‑3 (MQ=255)

                  aGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTcg                                                                >  1:2415427/1‑58 (MQ=255)

                   gTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                   >  1:2973139/1‑70 (MQ=255)

                    tGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCttt                                                                  <  1:1154704/54‑1 (MQ=255)

                    tGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                   >  1:1347867/1‑69 (MQ=255)

                        gTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATcc                                                  <  1:702811/66‑1 (MQ=255)

                        gTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATcc                                                  <  1:1990504/66‑1 (MQ=255)

                        gTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAgg                                               >  1:2885049/1‑69 (MQ=255)

                          caCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCttt                                                                  <  1:4309067/47‑1 (MQ=255)

                          caCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGaaac                                           >  1:3999744/2‑69 (MQ=255)

                           aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCtttag                                                                >  1:5537666/1‑47 (MQ=255)

                           aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTcctg                                                >  1:1652409/1‑63 (MQ=255)

                           aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                          >  1:5455186/1‑71 (MQ=255)

                           aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                          <  1:2627342/71‑1 (MQ=255)

                           aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                          >  1:108465/1‑71 (MQ=255)

                           aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTg                                                      <  1:140950/59‑1 (MQ=255)

                           aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                           <  1:4591973/70‑1 (MQ=255)

                           aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                           <  1:5499635/70‑1 (MQ=255)

                            cGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTagc                                                               <  1:4942817/49‑1 (MQ=255)

                            cGTAATCTTCAACGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAAcc                                                        <  1:835081/56‑1 (MQ=255)

                             gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTagca                                                              >  1:3202087/1‑48 (MQ=19)

                             gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                        <  1:2052306/71‑1 (MQ=255)

                             gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                           <  1:5420870/68‑1 (MQ=255)

                             gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                           <  1:2108966/68‑1 (MQ=255)

                             gTAATCTTAGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTagca                                                              >  1:361452/1‑48 (MQ=16)

                                aTCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTagca                                                              >  1:2153076/1‑45 (MQ=16)

                                aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcg                                     >  1:5262763/1‑71 (MQ=255)

                                aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcg                                     >  1:5333516/1‑71 (MQ=255)

                                aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                      <  1:1217528/70‑1 (MQ=255)

                                aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                      <  1:2946673/70‑1 (MQ=255)

                                  cTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGt                                                                      >  1:5391943/1‑36 (MQ=255)

                                  cTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGt                                                                      >  1:3167041/1‑36 (MQ=255)

                                  cTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTc                                                                     >  1:2245386/1‑37 (MQ=255)

                                  cTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                   >  1:5031790/1‑71 (MQ=255)

                                   ttCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGa                                              <  1:5156722/59‑1 (MQ=255)

                                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTcgcg                                                              >  1:5443595/1‑43 (MQ=255)

                                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTcgcg                                                              >  1:4352900/1‑43 (MQ=255)

                                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTcgcg                                                              >  1:4230971/1‑43 (MQ=255)

                                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTcgcg                                                              >  1:3642964/1‑43 (MQ=255)

                                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTcgcg                                                              >  1:1303626/1‑43 (MQ=255)

                                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                    >  1:5430545/1‑69 (MQ=255)

                                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                   >  1:1685781/1‑70 (MQ=255)

                                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                  >  1:2063233/1‑71 (MQ=255)

                                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                  >  1:2486038/1‑71 (MQ=255)

                                     cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                  <  1:5634821/69‑1 (MQ=255)

                                     cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTg                                 <  1:3157432/70‑1 (MQ=255)

                                      aTCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGa                                >  1:462059/1‑70 (MQ=255)

                                       tcatAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATc                              <  1:2769368/68‑1 (MQ=255)

                                        catAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCt                             >  1:3431730/3‑71 (MQ=255)

                                         atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                         <  1:557120/57‑1 (MQ=255)

                                         atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                         <  1:4595056/57‑1 (MQ=255)

                                         atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCtt                            >  1:4084607/2‑71 (MQ=255)

                                         atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCt                             <  1:1578500/69‑1 (MQ=255)

                                         atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCt                             >  1:3321430/2‑70 (MQ=255)

                                          tAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                        <  1:1038443/58‑1 (MQ=255)

                                           aGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTct                          >  1:3618334/1‑70 (MQ=255)

                                            gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTctg                         >  1:3853750/1‑69 (MQ=255)

                                            gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTctg                         >  1:5693059/1‑69 (MQ=255)

                                            gAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcg                         >  1:4037584/1‑71 (MQ=255)

                                             aaCATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcgc                        <  1:2846754/71‑1 (MQ=255)

                                               cATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGt                      <  1:4430440/71‑1 (MQ=255)

                                               cATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGt                      >  1:2141943/1‑71 (MQ=255)

                                               cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                   <  1:4142501/58‑1 (MQ=255)

                                                 tggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                    <  1:304919/69‑2 (MQ=255)

                                                 tCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                    <  1:3810493/71‑1 (MQ=255)

                                                  ggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcgt                   >  1:3469952/2‑69 (MQ=255)

                                                  ggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                    <  1:567082/69‑2 (MQ=255)

                                                  cGCTTCGTCGTCACCTGCGTCTTTCGCTGCAACCTGATCCAGGAAGc                                           <  1:1793986/47‑1 (MQ=255)

                                                    cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                 <  1:2975721/71‑1 (MQ=255)

                                                      tcgtcgTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttt                 <  1:102543/69‑2 (MQ=255)

                                                       cgtcgtCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGtttaa               <  1:5573518/70‑4 (MQ=255)

                                                       cgtcgtCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttta                <  1:1583054/69‑3 (MQ=255)

                                                        gtcgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGtttaa               >  1:2656606/1‑66 (MQ=255)

                                                         tcgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTc                     <  1:4628986/62‑1 (MQ=255)

                                                           gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAg                                            <  1:2196866/37‑1 (MQ=255)

                                                           gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAg                                            <  1:4729331/37‑1 (MQ=255)

                                                            tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCt         <  1:1432638/71‑1 (MQ=255)

                                                                   cGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc   <  1:3043267/70‑1 (MQ=255)

                                                                   cGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCg  >  1:3763480/1‑71 (MQ=255)

GGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCG  >  minE/1933031‑1933168

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