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 1,933,109 G→T 42.6% A445D (GCC→GAC) ‡ lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,1090GT42.6% 112.4 / 136.0 136A445D (GCC→GAC) ‡lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (39/38);  new base T (25/32);  total (66/70)
Fisher's exact test for biased strand distribution p-value = 4.86e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.88e-01

Only 100 of 140 total aligned reads displayed.

CATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTC  >  minE/1933041‑1933179
                                                                    |                                                                      
cATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGc                                                                       >  1:2967475/1‑70 (MQ=255)
 aTGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCaa                                                                     >  1:1084495/1‑71 (MQ=255)
 aTGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGAGTCTTTCGCGGCaa                                                                     >  1:226970/1‑71 (MQ=255)
     tCCAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTg                                                                 >  1:2664724/1‑71 (MQ=255)
      ccAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGa                                                                >  1:369527/1‑71 (MQ=255)
      ccAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgt                                                                >  1:1089950/1‑70 (MQ=255)
      ccAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgt                                                                >  1:3222538/1‑70 (MQ=255)
      ccAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgt                                                                >  1:1492064/1‑70 (MQ=255)
      ccAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgt                                                                >  1:4727515/1‑70 (MQ=255)
       cAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgtt                                                               <  1:691635/71‑3 (MQ=255)
       cAGCGCAGTCACGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTgtt                                                               <  1:2131891/71‑3 (MQ=255)
         gTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                              >  1:476922/1‑70 (MQ=255)
          tGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                              >  1:1347867/1‑69 (MQ=255)
              gTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATcc                                                             <  1:1990504/66‑1 (MQ=255)
              gTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATcc                                                             <  1:208561/66‑1 (MQ=255)
                caCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGaaac                                                      >  1:3999744/2‑69 (MQ=255)
                 aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                     >  1:5455186/1‑71 (MQ=255)
                 aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                     <  1:1152242/71‑1 (MQ=255)
                 aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTg                                                                 <  1:140950/59‑1 (MQ=255)
                 aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTg                                                                 <  1:1086110/59‑1 (MQ=255)
                 aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                      <  1:4591973/70‑1 (MQ=255)
                  cGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                    <  1:344419/71‑1 (MQ=255)
                  cGTAATCTTCAACGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAAcc                                                                   <  1:835081/56‑1 (MQ=255)
                   gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                     <  1:251110/69‑1 (MQ=255)
                   gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                   <  1:2052306/71‑1 (MQ=255)
                   gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                      <  1:2108966/68‑1 (MQ=255)
                   gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                      <  1:5420870/68‑1 (MQ=255)
                    tAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGttc                                                  <  1:145909/71‑2 (MQ=255)
                     aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCa                                                                      <  1:1507352/50‑1 (MQ=255)
                     aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                    <  1:2769100/68‑1 (MQ=255)
                      aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCacc                                                                    >  1:22391/1‑49 (MQ=255)
                      aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcg                                                >  1:5333516/1‑71 (MQ=255)
                      aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                 <  1:2946673/70‑1 (MQ=255)
                      aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                 <  1:1217528/70‑1 (MQ=255)
                      aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGCCAACCTGATCCAGGAAGCGTTgcg                                                >  1:3048664/1‑71 (MQ=255)
                       tCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                     <  1:3560192/65‑1 (MQ=255)
                       tCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                 <  1:3514704/69‑1 (MQ=255)
                        cTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGa                                                         >  1:401019/1‑60 (MQ=255)
                        cTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                              >  1:5031790/1‑71 (MQ=255)
                         ttCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGaaa                                                       >  1:3260059/1‑60 (MQ=255)
                         ttCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGa                                                         <  1:5156722/59‑1 (MQ=255)
                         ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                               >  1:5430545/1‑69 (MQ=255)
                         ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                              >  1:1685781/1‑70 (MQ=255)
                         ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                             >  1:2486038/1‑71 (MQ=255)
                           cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGc                                                                       <  1:1238746/43‑1 (MQ=255)
                           cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGaa                                                        <  1:3334116/58‑1 (MQ=255)
                           cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGa                                           >  1:728693/1‑71 (MQ=255)
                            aTCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGa                                           >  1:462059/1‑70 (MQ=255)
                               atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                    <  1:4595056/57‑1 (MQ=255)
                               atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                    <  1:557120/57‑1 (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                                    >  1:157900/1‑69 (MQ=255)
                                  gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTctg                                    >  1:5693059/1‑69 (MQ=255)
                                  gAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcg                                    >  1:4037584/1‑71 (MQ=255)
                                   aaCATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcgc                                   <  1:2846754/71‑1 (MQ=255)
                                     cATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGt                                 >  1:2141943/1‑71 (MQ=255)
                                     cATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGt                                 <  1:4430440/71‑1 (MQ=255)
                                     cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                    >  1:3133129/1‑52 (MQ=255)
                                     cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                              <  1:4142501/58‑1 (MQ=255)
                                     cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                              <  1:2982565/58‑1 (MQ=255)
                                       tggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                               <  1:5685779/69‑2 (MQ=255)
                                       tCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                               <  1:3810493/71‑1 (MQ=255)
                                       tCGCTTCGTCGTCACCTGCGTCTTTCGCGCCAACCt                                                                  >  1:4109142/1‑36 (MQ=255)
                                        ggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcgt                              >  1:3469952/2‑69 (MQ=255)
                                        cGCTTCGTCGTCACCTGCGTCTTTCGCTGCAACCTGATCCAGGAAGc                                                      <  1:1793986/47‑1 (MQ=255)
                                         gCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCAtt                             >  1:5288223/1‑71 (MQ=255)
                                          cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGtt                                                   <  1:51440/48‑1 (MQ=255)
                                          cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGAt                                          >  1:2837605/1‑57 (MQ=255)
                                          cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                            <  1:2975721/71‑1 (MQ=255)
                                            tcgtcgTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttt                            <  1:102543/69‑2 (MQ=255)
                                            tcgtcgTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttt                            <  1:1668496/69‑2 (MQ=255)
                                             cgtcgtCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGtttaa                          <  1:185405/70‑4 (MQ=255)
                                             cgtcgtCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGtttaa                          <  1:5573518/70‑4 (MQ=255)
                                             cgtcgtCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttta                           <  1:1583054/69‑3 (MQ=255)
                                              gtcgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGtttaa                          >  1:2656606/1‑66 (MQ=255)
                                               tcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTc                       <  1:5644894/71‑1 (MQ=255)
                                               tcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTc                       >  1:2887221/1‑71 (MQ=255)
                                               tcgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTc                                <  1:4628986/62‑1 (MQ=255)
                                                cgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTc                                      <  1:2014241/55‑1 (MQ=255)
                                                 gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAg                                                       <  1:2196866/37‑1 (MQ=255)
                                                 gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAg                                                       <  1:4729331/37‑1 (MQ=255)
                                                 gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGc                     >  1:5584112/1‑71 (MQ=255)
                                                  tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCt                    <  1:5443102/71‑1 (MQ=255)
                                                      cTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                >  1:2133253/1‑71 (MQ=255)
                                                         cGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc              <  1:3043267/70‑1 (MQ=255)
                                                         cGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCg             >  1:3763480/1‑71 (MQ=255)
                                                           tCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt            >  1:5461608/1‑70 (MQ=255)
                                                            cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa          >  1:2278565/1‑71 (MQ=255)
                                                              ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGc               >  1:4955044/1‑64 (MQ=255)
                                                              ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt            >  1:1723802/1‑67 (MQ=255)
                                                               tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc        <  1:3059724/70‑1 (MQ=255)
                                                               tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc         <  1:3032305/69‑1 (MQ=255)
                                                                cgcgGCAACCTGATCCAGGACGCGTTGCGCCTGATc                                         >  1:5638580/1‑36 (MQ=255)
                                                                cgcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATc                                         >  1:3234368/1‑36 (MQ=255)
                                                                 gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCg                      >  1:3878992/1‑54 (MQ=255)
                                                                   ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt   <  1:234870/71‑1 (MQ=255)
                                                                    gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt   <  1:5256005/70‑1 (MQ=255)
                                                                    |                                                                      
CATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTC  >  minE/1933041‑1933179

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