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 1,933,121 A→T 40.1% L441Q (CTG→CAG)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,1210AT40.1% 120.0 / 198.4 167L441Q (CTG→CAG) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base A (44/56);  new base T (27/40);  total (71/96)
Fisher's exact test for biased strand distribution p-value = 7.50e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01

Only 100 of 169 total aligned reads displayed.

GTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAT  >  minE/1933055‑1933191
                                                                  |                                                                      
  caCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGaaac                                                                  >  1:3999744/2‑69 (MQ=255)
   aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                                 <  1:2627342/71‑1 (MQ=255)
   aCGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                                 >  1:5455186/1‑71 (MQ=255)
   aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                                  <  1:4591973/70‑1 (MQ=255)
    cGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                                <  1:344419/71‑1 (MQ=255)
     gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                                 <  1:251110/69‑1 (MQ=255)
     gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                               <  1:1957255/71‑1 (MQ=255)
     gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                               >  1:2153822/1‑71 (MQ=255)
     gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                                  <  1:2108966/68‑1 (MQ=255)
     gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                                  <  1:5420870/68‑1 (MQ=255)
       aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                                <  1:2769100/68‑1 (MQ=255)
        aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcg                                                            >  1:5333516/1‑71 (MQ=255)
        aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                             <  1:1217528/70‑1 (MQ=255)
         tCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                                 <  1:3560192/65‑1 (MQ=255)
          cTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                                          >  1:5031790/1‑71 (MQ=255)
           ttCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGaaa                                                                   >  1:3260059/1‑60 (MQ=255)
           ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                                          >  1:1685781/1‑70 (MQ=255)
           ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                                         >  1:2063233/1‑71 (MQ=255)
             cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGaa                                                                    <  1:3334116/58‑1 (MQ=255)
             cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                                         <  1:5634821/69‑1 (MQ=255)
             cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTg                                                        <  1:3157432/70‑1 (MQ=255)
             cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGa                                                       >  1:728693/1‑71 (MQ=255)
                 atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                                <  1:557120/57‑1 (MQ=255)
                 atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCtt                                                   >  1:4084607/2‑71 (MQ=255)
                 atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCtt                                                   >  1:504192/2‑71 (MQ=255)
                 atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCt                                                    >  1:3321430/2‑70 (MQ=255)
                  tAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                               <  1:3810730/58‑1 (MQ=255)
                  tAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                               <  1:1038443/58‑1 (MQ=255)
                  tAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTc                                                  <  1:5379538/71‑1 (MQ=255)
                    gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTctg                                                >  1:5693059/1‑69 (MQ=255)
                    gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTctg                                                >  1:157900/1‑69 (MQ=255)
                    gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTct                                                 <  1:4171349/70‑2 (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                                                          <  1:3622461/58‑1 (MQ=255)
                       cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                                          <  1:4142501/58‑1 (MQ=255)
                         tggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                                           <  1:4602582/69‑2 (MQ=255)
                         tggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                                           <  1:304919/69‑2 (MQ=255)
                         tCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                           <  1:3810493/71‑1 (MQ=255)
                          ggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcgt                                          >  1:3469952/2‑69 (MQ=255)
                          ggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                                           <  1:567082/69‑2 (MQ=255)
                           gCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCtt                                                   >  1:2250125/1‑61 (MQ=255)
                            cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGtt                                                               <  1:51440/48‑1 (MQ=255)
                            cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGAt                                                      >  1:2837605/1‑57 (MQ=255)
                            cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                                        <  1:2975721/71‑1 (MQ=255)
                              tcgtcgTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttt                                        <  1:1668496/69‑2 (MQ=255)
                              tcgtcgTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttt                                        <  1:102543/69‑2 (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                                   >  1:2887221/1‑71 (MQ=255)
                                 tcgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTc                                            <  1:4628986/62‑1 (MQ=255)
                                  cgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTc                                                  <  1:2014241/55‑1 (MQ=255)
                                   gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAg                                                                   <  1:4729331/37‑1 (MQ=255)
                                    tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCt                                <  1:1432638/71‑1 (MQ=255)
                                    tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCt                                <  1:5443102/71‑1 (MQ=255)
                                           cGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc                          <  1:3043267/70‑1 (MQ=255)
                                             tCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                        >  1:5461608/1‑70 (MQ=255)
                                              cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                      >  1:2278565/1‑71 (MQ=255)
                                              cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                      >  1:3019898/1‑71 (MQ=255)
                                               tttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                     >  1:1110760/1‑71 (MQ=255)
                                                  cgcgGCAACCTGATCCAGGACGCGTTGCGCCTGATc                                                     >  1:5638580/1‑36 (MQ=255)
                                                   gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCg                                  >  1:4927850/1‑54 (MQ=255)
                                                   gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCg                                  >  1:3878992/1‑54 (MQ=255)
                                                     ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt               <  1:234870/71‑1 (MQ=255)
                                                     ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt               <  1:4699661/71‑1 (MQ=255)
                                                      ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCAtt                       <  1:5163388/60‑1 (MQ=255)
                                                      ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTc              <  1:1364007/69‑1 (MQ=255)
                                                      gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt               <  1:5256005/70‑1 (MQ=255)
                                                       taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                             <  1:1425217/54‑1 (MQ=255)
                                                       taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                             <  1:2442884/54‑1 (MQ=255)
                                                       taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                             <  1:2479176/54‑1 (MQ=255)
                                                       cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                           <  1:440975/41‑1 (MQ=255)
                                                       cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                           <  1:3350585/41‑1 (MQ=255)
                                                       cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCa             >  1:5270196/1‑71 (MQ=255)
                                                        aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                           <  1:677582/40‑1 (MQ=255)
                                                        aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                     <  1:1558429/62‑1 (MQ=255)
                                                        aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc            <  1:3734483/71‑1 (MQ=255)
                                                         aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTc                                            <  1:1230944/38‑1 (MQ=255)
                                                         aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTc                                            <  1:3042499/38‑1 (MQ=255)
                                                         aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCAtt                                         >  1:2066139/1‑41 (MQ=255)
                                                           cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                                        >  1:2684931/1‑40 (MQ=255)
                                                            tGATCCAGGAAGCGTTGCGCTTGATCTTCCGCGTCATTc                                        <  1:1818849/39‑1 (MQ=255)
                                                             gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca       >  1:571443/3‑71 (MQ=255)
                                                             gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca       >  1:3179684/3‑71 (MQ=255)
                                                             gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                    <  1:5614661/42‑1 (MQ=255)
                                                             gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                    <  1:2515325/42‑1 (MQ=255)
                                                             gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                            <  1:545302/50‑1 (MQ=255)
                                                              ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac      <  1:394704/70‑1 (MQ=255)
                                                              ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacc        <  1:3514483/68‑1 (MQ=255)
                                                              aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                    <  1:178907/57‑1 (MQ=255)
                                                              aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac      <  1:1624623/71‑1 (MQ=255)
                                                               tCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCg                         >  1:3529392/1‑51 (MQ=255)
                                                                ccAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                 >  1:2960401/1‑58 (MQ=255)
                                                                  aGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt  <  1:43334/71‑1 (MQ=255)
                                                                  |                                                                      
GTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAT  >  minE/1933055‑1933191

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