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 1,933,633 A→G 30.1% R270R (CGT→CGC)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,6330AG30.1% 239.8 / 134.8 177R270R (CGT→CGC) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base A (60/63);  new base G (25/28);  total (85/92)
Fisher's exact test for biased strand distribution p-value = 8.71e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 179 total aligned reads displayed.

AGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCA  >  minE/1933565‑1933703
                                                                    |                                                                      
aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                      >  1:2144389/1‑71 (MQ=255)
aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                      >  1:1631772/1‑71 (MQ=255)
aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                      >  1:1337695/1‑71 (MQ=255)
    cGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                                                  >  1:5580556/1‑71 (MQ=255)
     gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTAc                                                                   <  1:2618209/69‑1 (MQ=255)
     gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTAc                                                                   <  1:4813837/69‑1 (MQ=255)
       taaGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                                                <  1:2749264/68‑1 (MQ=255)
       tCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                                                >  1:5617105/1‑70 (MQ=255)
              tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                      <  1:5237807/57‑1 (MQ=255)
              tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                      <  1:1190534/57‑1 (MQ=255)
              gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt                                                        >  1:4159908/4‑71 (MQ=255)
                tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTa                                                                    >  1:4402170/1‑57 (MQ=255)
                  tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                      >  1:3072758/1‑53 (MQ=255)
                  tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGt                                                     <  1:3745819/70‑1 (MQ=255)
                  tAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTca                                                      <  1:4238562/69‑2 (MQ=255)
                  tAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTca                                                      <  1:2503967/69‑2 (MQ=255)
                    aTCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                                              >  1:3950377/1‑59 (MQ=255)
                    aTCCGCATACGCCATGTAGAGTTACATCATTGTGAACTCAGGATTATGGCGAACAGaa                                                               >  1:4041847/1‑58 (MQ=255)
                       tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                                                >  1:46491/1‑70 (MQ=255)
                       tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                                                >  1:3010245/1‑70 (MQ=255)
                         cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGa                                               <  1:2944428/69‑1 (MQ=255)
                         cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAg                                             <  1:5230058/71‑1 (MQ=255)
                           tacgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGtt                                           <  1:4557750/68‑1 (MQ=255)
                            acgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                                                <  1:3607038/47‑1 (MQ=255)
                            aaGCCATGTAGATTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                                          >  1:3969084/1‑71 (MQ=255)
                             aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATa                                                            >  1:1549854/1‑52 (MQ=255)
                             aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                         <  1:2409599/71‑1 (MQ=255)
                             aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                         <  1:2954998/71‑1 (MQ=255)
                             aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                         <  1:166163/71‑1 (MQ=255)
                              gCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                                        >  1:4784605/1‑71 (MQ=255)
                                 aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                     <  1:1890924/71‑1 (MQ=255)
                                 aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                     <  1:4256620/71‑1 (MQ=255)
                                  tGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTa                                                   >  1:3692779/1‑56 (MQ=255)
                                  tGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTa                                                   >  1:3725946/1‑56 (MQ=255)
                                   gTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                                              <  1:4776305/44‑1 (MQ=16)
                                   gTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                                                <  1:3789488/42‑1 (MQ=16)
                                   gTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                              >  1:1446979/1‑44 (MQ=255)
                                    tAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                                              >  1:1369690/1‑43 (MQ=16)
                                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                                                                      >  1:880187/1‑35 (MQ=255)
                                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                              >  1:4208479/1‑43 (MQ=255)
                                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATAcc                                                          <  1:650793/47‑1 (MQ=255)
                                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATAcc                                                          <  1:1531179/47‑1 (MQ=255)
                                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                   <  1:1783731/70‑1 (MQ=255)
                                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                  >  1:5302943/1‑71 (MQ=255)
                                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                  >  1:3599301/1‑71 (MQ=255)
                                     agagTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAt                                  <  1:1984488/70‑1 (MQ=255)
                                      gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                                        >  1:1417008/1‑47 (MQ=255)
                                      gagTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt                                                        >  1:3508873/1‑47 (MQ=255)
                                        gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                              <  1:3840340/71‑1 (MQ=255)
                                          tCCATCATGGTGAACTATGGGTTATGACGTACGGAAATACCTTCGtt                                                    <  1:725456/47‑1 (MQ=255)
                                           ccATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGaa                            <  1:2076415/70‑1 (MQ=255)
                                           ccATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGaa                            >  1:194962/1‑70 (MQ=255)
                                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                                              >  1:4123391/1‑52 (MQ=255)
                                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                                              >  1:1003256/1‑52 (MQ=255)
                                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                   >  1:2682370/1‑63 (MQ=255)
                                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAttt                                >  1:1314845/1‑66 (MQ=255)
                                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAttt                                >  1:2290000/1‑66 (MQ=255)
                                            catcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGtt                                           <  1:4010804/54‑1 (MQ=255)
                                            catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                   <  1:5653391/62‑1 (MQ=255)
                                            catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                   <  1:4511490/62‑1 (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                      >  1:5339757/1‑71 (MQ=255)
                                                  ggTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGa                             <  1:2793424/62‑1 (MQ=255)
                                                  ggTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACg                      >  1:780594/1‑69 (MQ=255)
                                                   gTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCt                    <  1:675221/70‑1 (MQ=255)
                                                   gTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCgtt                    >  1:1080564/1‑68 (MQ=255)
                                                    tGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACgg                                                <  1:1758720/41‑1 (MQ=16)
                                                      aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                     <  1:91075/50‑1 (MQ=255)
                                                      aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                     <  1:1251588/50‑1 (MQ=255)
                                                      aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa                <  1:4827354/71‑1 (MQ=255)
                                                      aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa                <  1:430150/71‑1 (MQ=255)
                                                      aaCTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTcaa                 >  1:3317304/1‑68 (MQ=255)
                                                        ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                              <  1:5547161/55‑1 (MQ=255)
                                                        ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc              <  1:2892083/71‑1 (MQ=255)
                                                        ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc              <  1:5195268/71‑1 (MQ=255)
                                                        ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc              <  1:4084731/71‑1 (MQ=255)
                                                           tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACg                                        <  1:5368982/42‑1 (MQ=255)
                                                           tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGa                 <  1:4519719/65‑1 (MQ=255)
                                                           tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGa                 <  1:4923416/65‑1 (MQ=255)
                                                           tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccac           >  1:4228905/1‑71 (MQ=255)
                                                           tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccac           >  1:2777119/1‑71 (MQ=255)
                                                           tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccac           >  1:5437985/1‑71 (MQ=255)
                                                           tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc              <  1:1602887/68‑1 (MQ=255)
                                                           tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAAGGTTGATTTCGAATACACGCTCGAAGccac           >  1:2157608/1‑71 (MQ=255)
                                                             ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                                          >  1:1013563/1‑38 (MQ=255)
                                                             ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAg               >  1:2616005/1‑65 (MQ=255)
                                                             ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAg               >  1:4676412/1‑65 (MQ=255)
                                                             ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccacc          <  1:4870123/70‑1 (MQ=255)
                                                             gattATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAAccgcc          >  1:4934209/3‑70 (MQ=255)
                                                              attATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCg                              >  1:2875523/2‑49 (MQ=37)
                                                                 aTGGCGAACAGAAATACCTTCATTACGGAAGTTACg                                        >  1:5447087/1‑36 (MQ=19)
                                                                 aTGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCaaaa               >  1:277397/1‑60 (MQ=255)
                                                                 aTGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCgcctacaa     >  1:748797/1‑69 (MQ=255)
                                                                  tGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGcca            >  1:4435687/1‑63 (MQ=255)
                                                                  tGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGcca            >  1:5042931/1‑63 (MQ=255)
                                                                    aCGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAAccacca  <  1:2818589/71‑1 (MQ=255)
                                                                    |                                                                      
AGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCA  >  minE/1933565‑1933703

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