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 1,933,636 T→A 31.2% V269V (GTA→GTT)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,6360TA31.2% 252.3 / 153.1 173V269V (GTA→GTT) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base T (56/63);  new base A (25/29);  total (81/92)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.48e-01

Only 100 of 174 total aligned reads displayed.

CGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAG  >  minE/1933569‑1933704
                                                                   |                                                                    
 gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTAc                                                                    <  1:4813837/69‑1 (MQ=255)
   taaGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                                                                 <  1:2749264/68‑1 (MQ=255)
   tCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                                                 >  1:5617105/1‑70 (MQ=255)
         cTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                                                                   >  1:3107546/1‑62 (MQ=255)
          gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt                                                         >  1:2696559/4‑71 (MQ=255)
          gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt                                                         >  1:5217119/4‑71 (MQ=255)
          gtggTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCtt                                                         >  1:4159908/4‑71 (MQ=255)
            tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTa                                                                     >  1:4402170/1‑57 (MQ=255)
            tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCt                                                          <  1:4508666/68‑1 (MQ=255)
            tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc                                                        <  1:281655/70‑1 (MQ=255)
              tAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTca                                                       <  1:2503967/69‑2 (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)
                   tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg                                                 >  1:46491/1‑70 (MQ=255)
                     cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGa                                                <  1:2944428/69‑1 (MQ=255)
                     cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAg                                              <  1:5230058/71‑1 (MQ=255)
                       tacgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGtt                                            <  1:4557750/68‑1 (MQ=255)
                       tacgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGtt                                            <  1:540944/68‑1 (MQ=255)
                        acgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                                                                 <  1:850492/47‑1 (MQ=255)
                        aaGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTa                                           >  1:2642069/1‑71 (MQ=255)
                         cgCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTa                                           <  1:2422989/69‑1 (MQ=255)
                         aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATa                                                             >  1:1555754/1‑52 (MQ=255)
                         aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                          >  1:4836025/1‑71 (MQ=255)
                         aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                          <  1:1531389/71‑1 (MQ=255)
                         aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                          <  1:489138/71‑1 (MQ=255)
                         aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                          <  1:166163/71‑1 (MQ=255)
                         aGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAc                                          <  1:2954998/71‑1 (MQ=255)
                          gCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                                         >  1:4784605/1‑71 (MQ=255)
                          gCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACg                                         >  1:1069434/1‑71 (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)
                             aTGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                      <  1:1890924/71‑1 (MQ=255)
                              tGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTa                                                    >  1:3692779/1‑56 (MQ=255)
                               gTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                               >  1:5561247/1‑44 (MQ=255)
                               gTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                               >  1:2373620/1‑44 (MQ=255)
                                tAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGaaa                                                               >  1:1369690/1‑43 (MQ=16)
                                tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                                                               >  1:4208479/1‑43 (MQ=255)
                                tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATAcc                                                           <  1:1531179/47‑1 (MQ=255)
                                tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTg                                     >  1:3513224/1‑69 (MQ=255)
                                tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                    <  1:1783731/70‑1 (MQ=255)
                                tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                    <  1:3602202/70‑1 (MQ=255)
                                tAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                   >  1:5302943/1‑71 (MQ=255)
                                 agagTTCCATCATTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGAt                                   <  1:1984488/70‑1 (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)
                                     ttCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGa                              <  1:671639/71‑1 (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                                    >  1:3729672/1‑63 (MQ=255)
                                       ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAttt                                 >  1:1314845/1‑66 (MQ=255)
                                       ccATCATGGTGAACTCTGGGTTATGACGTACGGAAATAACTTCGTTACGGaa                                               >  1:4739015/1‑52 (MQ=255)
                                        catcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGtt                                            <  1:4010804/54‑1 (MQ=255)
                                        catcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGtt                                      <  1:1451763/60‑1 (MQ=255)
                                        catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                    <  1:5484193/62‑1 (MQ=255)
                                        catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                    <  1:5546947/62‑1 (MQ=255)
                                        catcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGa                                    <  1:5653391/62‑1 (MQ=255)
                                          tcatTGTGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGa                                    >  1:774495/1‑60 (MQ=255)
                                          tcatGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                   <  1:1116171/61‑1 (MQ=255)
                                           catGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATacac                        >  1:336618/1‑71 (MQ=255)
                                            atGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACg                       >  1:5339757/1‑71 (MQ=255)
                                               gTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCt                     <  1:3970881/70‑1 (MQ=255)
                                                tGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACgg                                                 <  1:1758720/41‑1 (MQ=16)
                                                tGAACTCAGGATTATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTca                   <  1:554714/71‑2 (MQ=255)
                                                  aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                      <  1:91075/50‑1 (MQ=255)
                                                  aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGtt                                      <  1:1251588/50‑1 (MQ=255)
                                                  aaCTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGaa                 <  1:430150/71‑1 (MQ=255)
                                                    ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc               >  1:4649937/1‑71 (MQ=255)
                                                    ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc               <  1:4084731/71‑1 (MQ=255)
                                                    ctctGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGc               <  1:2892083/71‑1 (MQ=255)
                                                       tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACg                                         <  1:5368982/42‑1 (MQ=255)
                                                       tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGa                  <  1:4519719/65‑1 (MQ=255)
                                                       tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGa                  <  1:4923416/65‑1 (MQ=255)
                                                       tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGa                  <  1:675965/65‑1 (MQ=255)
                                                       tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccac            >  1:4228905/1‑71 (MQ=255)
                                                       tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGccac            >  1:2777119/1‑71 (MQ=255)
                                                       tGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTAAGGTTGATTTCGAATACACGCTCGAAGccac            >  1:2157608/1‑71 (MQ=255)
                                                       tGGGTTATCACGTACGGAAATACCTTCGTTACGGAAGTTACg                                         <  1:1613899/42‑1 (MQ=255)
                                                         ggTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAg                >  1:2616005/1‑65 (MQ=255)
                                                          attATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCg                               >  1:2875523/2‑49 (MQ=37)
                                                           ttATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAAccgccta         >  1:4819371/1‑68 (MQ=255)
                                                           ttATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAAccgcct          >  1:2235956/1‑68 (MQ=255)
                                                           ttATGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCgcctac        <  1:3838952/71‑1 (MQ=255)
                                                             aTGGCGAACAGAAATACCTTCATTACGGAAGTTACg                                         >  1:5447087/1‑36 (MQ=19)
                                                             aTGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCaaaa                >  1:277397/1‑60 (MQ=255)
                                                             aTGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCgcctacaa      >  1:748797/1‑69 (MQ=255)
                                                             aTGGCGAACAGAAATACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCgcctaca       <  1:1084518/70‑2 (MQ=255)
                                                              tGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGcca             >  1:4435687/1‑63 (MQ=255)
                                                              tGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAaccac     <  1:3773230/71‑1 (MQ=255)
                                                                aCGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAAccacca   <  1:2818589/71‑1 (MQ=255)
                                                                   tACGGAAATACCTTCGTTACGGAAGTTACGGTTGAt                                   <  1:1002749/36‑1 (MQ=255)
                                                                   |                                                                    
CGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAG  >  minE/1933569‑1933704

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