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 1,933,627 G→A 27.4% N272N (AAC→AAT)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,6270GA27.4% 273.3 / 110.3 168N272N (AAC→AAT) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (58/64);  new base A (18/28);  total (76/92)
Fisher's exact test for biased strand distribution p-value = 3.86e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 176 total aligned reads displayed.

CGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAA  >  minE/1933560‑1933697
                                                                   |                                                                      
cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                                     >  1:524734/1‑71 (MQ=255)
cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                                     >  1:724880/1‑71 (MQ=255)
  gTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATg                                                                   <  1:658033/71‑1 (MQ=255)
   tCAGTTCAATCAAATAGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTa                                                                     <  1:3702415/68‑1 (MQ=255)
   tCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGtt                                                                      <  1:4874424/67‑1 (MQ=255)
     aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                >  1:2144389/1‑71 (MQ=255)
         cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTggg                                                                        >  1:4682924/1‑59 (MQ=255)
         cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCAATCATGGTGAACTCTggg                                                                        >  1:2521287/1‑59 (MQ=255)
            taaGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                                          <  1:2749264/68‑1 (MQ=255)
            tCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                                          >  1:5617105/1‑70 (MQ=255)
                   tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                <  1:1190534/57‑1 (MQ=255)
                   gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt                                                  >  1:5217119/4‑71 (MQ=255)
                    ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                                     >  1:320873/1‑51 (MQ=255)
                     tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTa                                                              >  1:4402170/1‑57 (MQ=255)
                     tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCt                                                   <  1:4508666/68‑1 (MQ=255)
                     tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                                 <  1:281655/70‑1 (MQ=255)
                       tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                                                     >  1:3183721/1‑48 (MQ=255)
                       tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                >  1:3072758/1‑53 (MQ=255)
                       tAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTca                                                <  1:4238562/69‑2 (MQ=255)
                         aTCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                                        >  1:3950377/1‑59 (MQ=255)
                         aTCCGCATACGCCATGTAGAGTTACATCATTGTGAACTCAGGATTATGGCGAACAGaa                                                         >  1:4041847/1‑58 (MQ=255)
                            tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                                          >  1:3010245/1‑70 (MQ=255)
                              cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAg                                       <  1:5230058/71‑1 (MQ=255)
                                 aaGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                                    >  1:2642069/1‑71 (MQ=255)
                                  cgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTa                                    <  1:1962743/69‑1 (MQ=255)
                                  cgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTa                                    <  1:2422989/69‑1 (MQ=255)
                                  aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATa                                                      >  1:1555754/1‑52 (MQ=255)
                                  aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                   <  1:2409599/71‑1 (MQ=255)
                                  aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                   <  1:1531389/71‑1 (MQ=255)
                                  aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                   <  1:2954998/71‑1 (MQ=255)
                                   gCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                                  <  1:1362355/71‑1 (MQ=255)
                                      aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                               <  1:165428/71‑1 (MQ=255)
                                      aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                               <  1:1890924/71‑1 (MQ=255)
                                       tGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGa                                         <  1:1720756/60‑1 (MQ=255)
                                        gTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                                        <  1:4776305/44‑1 (MQ=16)
                                        gTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                                        <  1:2916993/44‑1 (MQ=16)
                                        gTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                                          <  1:3789488/42‑1 (MQ=16)
                                        gTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                        >  1:5561247/1‑44 (MQ=255)
                                        gTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                        >  1:4270924/1‑44 (MQ=255)
                                         tAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAt                            <  1:4017126/71‑1 (MQ=255)
                                         tAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                >  1:880187/1‑35 (MQ=255)
                                         tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                        >  1:4208479/1‑43 (MQ=255)
                                         tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                             <  1:3602202/70‑1 (MQ=255)
                                         tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                             <  1:1783731/70‑1 (MQ=255)
                                         tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                            >  1:3599301/1‑71 (MQ=255)
                                         tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                            >  1:5302943/1‑71 (MQ=255)
                                          agagTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAt                            <  1:1984488/70‑1 (MQ=255)
                                           gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                                  >  1:3508873/1‑47 (MQ=255)
                                           gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                                  >  1:1417008/1‑47 (MQ=255)
                                           gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCt                                                   >  1:5110416/1‑46 (MQ=255)
                                            agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTc                         >  1:565703/1‑71 (MQ=255)
                                             gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                        <  1:3627925/71‑1 (MQ=255)
                                             gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                        <  1:3840340/71‑1 (MQ=255)
                                               tCCATCATGGTGAACTATGGGTTATGACGTACGGAAATACCTTCGtt                                              <  1:725456/47‑1 (MQ=255)
                                                ccATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGaa                      <  1:2076415/70‑1 (MQ=255)
                                                ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                                        >  1:4123391/1‑52 (MQ=255)
                                                ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                                        >  1:1003256/1‑52 (MQ=255)
                                                ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                             >  1:3729672/1‑63 (MQ=255)
                                                ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                             >  1:2682370/1‑63 (MQ=255)
                                                ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAttt                          >  1:2290000/1‑66 (MQ=255)
                                                ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAttt                          >  1:1314845/1‑66 (MQ=255)
                                                ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATAACTTCGTTACGGaa                                        >  1:4739015/1‑52 (MQ=255)
                                                acatcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                                        >  1:2891802/2‑52 (MQ=255)
                                                 catcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGtt                               <  1:1451763/60‑1 (MQ=255)
                                                 catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                             <  1:5653391/62‑1 (MQ=255)
                                                 catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                             <  1:5484193/62‑1 (MQ=255)
                                                 catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                             <  1:5546947/62‑1 (MQ=255)
                                                   tcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATacc                  >  1:1618597/1‑70 (MQ=255)
                                                   tcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                            <  1:1116171/61‑1 (MQ=255)
                                                    catGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATacac                 >  1:336618/1‑71 (MQ=255)
                                                     atGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACg                >  1:4177917/1‑71 (MQ=255)
                                                       ggTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGa                       <  1:2793424/62‑1 (MQ=255)
                                                       ggTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACg                >  1:780594/1‑69 (MQ=255)
                                                        gTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCt              <  1:675221/70‑1 (MQ=255)
                                                        gTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCt              <  1:3970881/70‑1 (MQ=255)
                                                        gTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCgtt              >  1:1080564/1‑68 (MQ=255)
                                                         tGAACTCAGGATTATGTCGAACAGAAATACCTTCATTACgg                                          <  1:480592/41‑1 (MQ=255)
                                                         tGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACgg                                          <  1:1758720/41‑1 (MQ=16)
                                                         tGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTca            <  1:554714/71‑2 (MQ=255)
                                                          gAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCg            >  1:4582207/1‑70 (MQ=255)
                                                           aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                               <  1:5358803/50‑1 (MQ=255)
                                                           aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                               <  1:91075/50‑1 (MQ=255)
                                                           aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                               <  1:1251588/50‑1 (MQ=255)
                                                           aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa          <  1:4827354/71‑1 (MQ=255)
                                                           aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa          <  1:4527674/71‑1 (MQ=255)
                                                           aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa          <  1:430150/71‑1 (MQ=255)
                                                           aaCTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTcaa           <  1:2987779/70‑3 (MQ=255)
                                                             ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc        >  1:4649937/1‑71 (MQ=255)
                                                             ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc        <  1:4084731/71‑1 (MQ=255)
                                                                tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACg                                  <  1:5368982/42‑1 (MQ=255)
                                                                tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGa           <  1:4923416/65‑1 (MQ=255)
                                                                tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGa           <  1:4519719/65‑1 (MQ=255)
                                                                tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccac     >  1:5437985/1‑71 (MQ=255)
                                                                tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccac     >  1:4228905/1‑71 (MQ=255)
                                                                tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccac     >  1:1408252/1‑71 (MQ=255)
                                                                tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc        <  1:1602887/68‑1 (MQ=255)
                                                                 gggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTACGAATACACGCTCGAAGccac     >  1:2774212/1‑70 (MQ=255)
                                                                  ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                                    >  1:1013563/1‑38 (MQ=255)
                                                                  ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAg         >  1:2616005/1‑65 (MQ=255)
                                                                  ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccacc    <  1:4870123/70‑1 (MQ=255)
                                                                   |                                                                      
CGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAA  >  minE/1933560‑1933697

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