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 1,933,651 G→A 29.3% N264N (AAC→AAT)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,6510GA29.3% 245.2 / 117.8 167N264N (AAC→AAT) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (54/64);  new base A (23/26);  total (77/90)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 168 total aligned reads displayed.

TGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTAC  >  minE/1933581‑1933717
                                                                      |                                                                  
  tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGt                                                                   <  1:3745819/70‑1 (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)
             cgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTa                                                        <  1:1962743/69‑1 (MQ=255)
             aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                                                        <  1:125228/70‑1 (MQ=255)
             aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                                       <  1:2409599/71‑1 (MQ=255)
             aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                                       <  1:2954998/71‑1 (MQ=255)
             aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                                       <  1:1531389/71‑1 (MQ=255)
             aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                                       <  1:166163/71‑1 (MQ=255)
              gCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                                                      >  1:5644200/1‑71 (MQ=255)
              gCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                                                      <  1:1362355/71‑1 (MQ=255)
                 aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                                   <  1:165428/71‑1 (MQ=255)
                 aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                                   <  1:3501760/71‑1 (MQ=255)
                 aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                                   <  1:4256620/71‑1 (MQ=255)
                 aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                                   <  1:5021681/71‑1 (MQ=255)
                  tGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTa                                                                 >  1:3725946/1‑56 (MQ=255)
                    tAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAt                                                <  1:4017126/71‑1 (MQ=255)
                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                                 <  1:1783731/70‑1 (MQ=255)
                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                                 <  1:3602202/70‑1 (MQ=255)
                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                                >  1:1807225/1‑71 (MQ=255)
                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                                >  1:3599301/1‑71 (MQ=255)
                    tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                                >  1:5302943/1‑71 (MQ=255)
                       agTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTc                                             >  1:565703/1‑71 (MQ=255)
                        gTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCg                                            <  1:3840340/71‑1 (MQ=255)
                          tCCATCATGGTGAACTATGGGTTATGACGTACGGAAATACCTTCGtt                                                                  <  1:725456/47‑1 (MQ=255)
                           ccATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGaa                                          >  1:194962/1‑70 (MQ=255)
                           ccATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGaa                                          <  1:2076415/70‑1 (MQ=255)
                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                                                            >  1:1003256/1‑52 (MQ=255)
                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                                                            >  1:4123391/1‑52 (MQ=255)
                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                                 >  1:2682370/1‑63 (MQ=255)
                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAttt                                              >  1:1314845/1‑66 (MQ=255)
                           ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATAACTTCGTTACGGaa                                                            >  1:4739015/1‑52 (MQ=255)
                           acatcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa                                                            >  1:2891802/2‑52 (MQ=255)
                            catcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGtt                                                         <  1:4010804/54‑1 (MQ=255)
                            catcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGtt                                                   <  1:1451763/60‑1 (MQ=255)
                            catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                                 <  1:5546947/62‑1 (MQ=255)
                            catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                                 <  1:5484193/62‑1 (MQ=255)
                              tcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                                <  1:2115306/61‑1 (MQ=255)
                                atGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACg                                    >  1:4177917/1‑71 (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)
                                   gTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCt                                  <  1:3970881/70‑1 (MQ=255)
                                   gTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCgtt                                  >  1:1080564/1‑68 (MQ=255)
                                    tGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCg                                <  1:1146341/71‑1 (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                                                   <  1:1251588/50‑1 (MQ=255)
                                      aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                                   <  1:5358803/50‑1 (MQ=255)
                                      aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                                   <  1:91075/50‑1 (MQ=255)
                                      aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa                              <  1:4827354/71‑1 (MQ=255)
                                      aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa                              <  1:430150/71‑1 (MQ=255)
                                      aaCTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTcaa                               >  1:3317304/1‑68 (MQ=255)
                                        ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc                            <  1:5195268/71‑1 (MQ=255)
                                        ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc                            <  1:4084731/71‑1 (MQ=255)
                                        ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc                            >  1:4649937/1‑71 (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                         >  1:1408252/1‑71 (MQ=255)
                                           tGGGTTATCACGTACGGAAATACCTTCGTTACGGAAGTTACg                                                      <  1:1613899/42‑1 (MQ=255)
                                            gggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTACGAATACACGCTCGAAGccac                         >  1:2774212/1‑70 (MQ=255)
                                             ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAg                             >  1:4676412/1‑65 (MQ=255)
                                             ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAg                             >  1:2616005/1‑65 (MQ=255)
                                             ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccacc                        <  1:4870123/70‑1 (MQ=255)
                                              gTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCaccaa                      >  1:2757253/1‑71 (MQ=255)
                                               ttATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAAccgcct                       >  1:2235956/1‑68 (MQ=255)
                                                 aTGGCGAACAGAAATACCTTCATTACGGAAGTTACg                                                      >  1:5447087/1‑36 (MQ=19)
                                                 aTGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCgcctacaa                   >  1:748797/1‑69 (MQ=255)
                                                 aTGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCgcctaca                    <  1:1084518/70‑2 (MQ=255)
                                                  tGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGcca                          >  1:4435687/1‑63 (MQ=255)
                                                    aCGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAAccacca                <  1:2818589/71‑1 (MQ=255)
                                                       tACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                                <  1:1002749/36‑1 (MQ=255)
                                                        aCGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACg            >  1:1033978/1‑71 (MQ=255)
                                                         cagAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACgt           <  1:4399028/69‑2 (MQ=255)
                                                         cGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa                              <  1:4410153/52‑1 (MQ=255)
                                                          agAAATACCTTCATTACGGAAGTTACGGTTGATTTCg                                            <  1:4227035/36‑1 (MQ=38)
                                                           gAAATACCTTCATTACGGAAGTTATGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGttt         >  1:3821128/1‑71 (MQ=255)
                                                            aaaTACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCg                                <  1:3268977/47‑1 (MQ=255)
                                                            aaaTACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGcca                          >  1:376949/1‑53 (MQ=255)
                                                             aaTACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGa       <  1:2298181/71‑1 (MQ=255)
                                                               tACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAga     <  1:260610/71‑2 (MQ=255)
                                                               tACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAga     <  1:5118977/71‑2 (MQ=255)
                                                                 ccTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTacaac                  >  1:1873826/1‑56 (MQ=255)
                                                                 ccTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa   <  1:4856855/71‑1 (MQ=255)
                                                                  cTTCGTTACGGAAGTTTCGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTAc  <  1:3647018/71‑1 (MQ=255)
                                                                   ttCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccacca                       <  1:3893942/49‑1 (MQ=255)
                                                                   ttCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGtg   >  1:1564411/1‑68 (MQ=255)
                                                                   ttCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTa   >  1:604968/1‑69 (MQ=255)
                                                                   ttCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa   >  1:2430177/1‑69 (MQ=255)
                                                                     cGTTACGGAAGTTACGGTTGATTTCGAATACACGCTc                                 >  1:5012709/1‑37 (MQ=255)
                                                                     cGTTACGGAAGTTACGGTTGATTTCGAATACACGCTc                                 >  1:2656446/1‑37 (MQ=255)
                                                                     cGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGcca                          >  1:1972426/1‑44 (MQ=255)
                                                                     cGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGcc                           >  1:2008424/1‑43 (MQ=255)
                                                                      |                                                                  
TGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTAC  >  minE/1933581‑1933717

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