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 1,933,117 A→T 37.5% D442E (GAT→GAA)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,1170AT37.5% 142.6 / 172.7 160D442E (GAT→GAA) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base A (43/57);  new base T (23/37);  total (66/94)
Fisher's exact test for biased strand distribution p-value = 6.20e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.70e-01

Only 100 of 163 total aligned reads displayed.

CCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCAC  >  minE/1933047‑1933187
                                                                      |                                                                      
   gTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                                      >  1:476922/1‑70 (MQ=255)
    tGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                                      >  1:1347867/1‑69 (MQ=255)
        gTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATcc                                                                     <  1:208561/66‑1 (MQ=255)
           aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                             <  1:1152242/71‑1 (MQ=255)
           aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                              <  1:5499635/70‑1 (MQ=255)
            cGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                            <  1:344419/71‑1 (MQ=255)
             gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                             <  1:251110/69‑1 (MQ=255)
             gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                           <  1:2052306/71‑1 (MQ=255)
             gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                              <  1:2108966/68‑1 (MQ=255)
              tAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGttc                                                          <  1:145909/71‑2 (MQ=255)
               aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                            <  1:2769100/68‑1 (MQ=255)
                aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcg                                                        >  1:5262763/1‑71 (MQ=255)
                aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcg                                                        >  1:5333516/1‑71 (MQ=255)
                aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                         <  1:2946673/70‑1 (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)
                   ttCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGaaa                                                               >  1:3260059/1‑60 (MQ=255)
                   ttCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGa                                                                 <  1:5156722/59‑1 (MQ=255)
                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                                       >  1:5430545/1‑69 (MQ=255)
                   ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                                     >  1:2486038/1‑71 (MQ=255)
                     cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGaa                                                                <  1:3334116/58‑1 (MQ=255)
                     cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTg                                                    <  1:3157432/70‑1 (MQ=255)
                     cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGa                                                   >  1:728693/1‑71 (MQ=255)
                       tcatAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATc                                                 <  1:2769368/68‑1 (MQ=255)
                         atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                            <  1:4595056/57‑1 (MQ=255)
                         atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCtt                                               >  1:504192/2‑71 (MQ=255)
                         atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCtt                                               >  1:4084607/2‑71 (MQ=255)
                         atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCt                                                >  1:3321430/2‑70 (MQ=255)
                          tAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                           <  1:1038443/58‑1 (MQ=255)
                            gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTctg                                            >  1:157900/1‑69 (MQ=255)
                            gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTctg                                            >  1:3853750/1‑69 (MQ=255)
                            gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTct                                             <  1:4171349/70‑2 (MQ=255)
                             aaCATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcgc                                           <  1:2846754/71‑1 (MQ=255)
                               cATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGt                                         >  1:2141943/1‑71 (MQ=255)
                               cATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGt                                         <  1:4430440/71‑1 (MQ=255)
                               cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                                      <  1:4142501/58‑1 (MQ=255)
                               cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                                      <  1:3622461/58‑1 (MQ=255)
                                 tggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                                       <  1:5685779/69‑2 (MQ=255)
                                 tggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                                       <  1:4602582/69‑2 (MQ=255)
                                 tCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                       <  1:3810493/71‑1 (MQ=255)
                                  ggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcgt                                      >  1:3469952/2‑69 (MQ=255)
                                  cGCTTCGTCGTCACCTGCGTCTTTCGCTGCAACCTGATCCAGGAAGc                                                              <  1:1793986/47‑1 (MQ=255)
                                   gCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCAtt                                     >  1:5288223/1‑71 (MQ=255)
                                   gCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCtt                                               >  1:2250125/1‑61 (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)
                                        gtcgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGtttaa                                  >  1:3920543/1‑66 (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)
                                                   cGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc                      <  1:3043267/70‑1 (MQ=255)
                                                     tCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                    >  1:5461608/1‑70 (MQ=255)
                                                      cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                  >  1:3019898/1‑71 (MQ=255)
                                                      cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                  >  1:2278565/1‑71 (MQ=255)
                                                       tttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                 >  1:1110760/1‑71 (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)
                                                           gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCg                              >  1:3878992/1‑54 (MQ=255)
                                                             ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt           <  1:234870/71‑1 (MQ=255)
                                                              ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCAtt                   <  1:3140496/60‑1 (MQ=255)
                                                              ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTc          <  1:2611400/69‑1 (MQ=255)
                                                              ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTc          <  1:1364007/69‑1 (MQ=255)
                                                              gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt           <  1:5256005/70‑1 (MQ=255)
                                                               taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                         <  1:2442884/54‑1 (MQ=255)
                                                               taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                         <  1:1425217/54‑1 (MQ=255)
                                                               cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                       <  1:3350585/41‑1 (MQ=255)
                                                               cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                       <  1:440975/41‑1 (MQ=255)
                                                                aaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCAc        >  1:701376/1‑71 (MQ=255)
                                                                aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                       <  1:677582/40‑1 (MQ=255)
                                                                aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAg                                  >  1:182549/1‑45 (MQ=255)
                                                                aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                 <  1:1558429/62‑1 (MQ=255)
                                                                aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc        <  1:3734483/71‑1 (MQ=255)
                                                                aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc        <  1:5395818/71‑1 (MQ=255)
                                                                 aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTc                                        <  1:1230944/38‑1 (MQ=255)
                                                                 aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTc                                        <  1:3953122/38‑1 (MQ=255)
                                                                 aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCAtt                                     >  1:2066139/1‑41 (MQ=255)
                                                                  ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTc                                        <  1:1654214/37‑1 (MQ=255)
                                                                   cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                                    >  1:2684931/1‑40 (MQ=255)
                                                                   cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac     <  1:5101936/71‑1 (MQ=255)
                                                                     gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                <  1:5621368/42‑1 (MQ=255)
                                                                     gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                <  1:1987914/42‑1 (MQ=255)
                                                                     gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                        <  1:545302/50‑1 (MQ=255)
                                                                     gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca   >  1:3731627/1‑71 (MQ=255)
                                                                      aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                <  1:178907/57‑1 (MQ=255)
                                                                      aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac  <  1:1624623/71‑1 (MQ=255)
                                                                      |                                                                      
CCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCAC  >  minE/1933047‑1933187

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A