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 1,933,231 G→A 48.9% N404N (AAC→AAT)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,2310GA48.9% 14.6 / 124.5 94N404N (AAC→AAT) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (24/24);  new base A (15/31);  total (39/55)
Fisher's exact test for biased strand distribution p-value = 9.83e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.34e-01

Only 100 of 101 total aligned reads displayed.

AAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTT  >  minE/1933162‑1933301
                                                                     |                                                                      
aaaGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtcgt                                                                       >  1:5640703/1‑71 (MQ=255)
   gCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac                                                                    >  1:2357625/1‑71 (MQ=255)
   gCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac                                                                    >  1:3459425/1‑71 (MQ=255)
   gCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac                                                                    >  1:3650974/1‑71 (MQ=255)
   gCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac                                                                    >  1:1998655/1‑71 (MQ=255)
     cattACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacgg                                                                  <  1:217585/69‑2 (MQ=255)
      gTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTacgac                                                                 >  1:169675/1‑71 (MQ=255)
         aCCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGAcgcg                                                              >  1:1279968/1‑71 (MQ=255)
             aTTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAg                                                          <  1:4415099/71‑1 (MQ=255)
             aTTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAg                                                          <  1:5034452/71‑1 (MQ=255)
             aTTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAg                                                          >  1:610317/1‑71 (MQ=255)
             aTTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAg                                                          <  1:5182046/71‑1 (MQ=255)
              tttCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacggcgtg                                                              <  1:4017068/66‑3 (MQ=255)
              tttCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacggcgtg                                                              <  1:1903804/66‑3 (MQ=255)
              tttCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacggcgtg                                                              <  1:4283486/66‑3 (MQ=255)
              tttCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGc                                                         <  1:4345069/71‑1 (MQ=255)
              tttCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGc                                                         <  1:114508/71‑1 (MQ=255)
              tttCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGc                                                         <  1:1902831/71‑1 (MQ=255)
              tttCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGc                                                         <  1:2494489/71‑1 (MQ=255)
                tCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGcc                                                            >  1:3604451/1‑66 (MQ=255)
                tCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCg                                                        <  1:5217669/70‑1 (MQ=255)
                tCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCg                                                        <  1:2327593/70‑1 (MQ=255)
                 cACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg                                                        <  1:1954216/69‑1 (MQ=255)
                  aCGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtcgt                                                                       >  1:4191302/1‑53 (MQ=255)
                   cGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGGCAGCGgag                                                     >  1:4861846/1‑70 (MQ=255)
                   cGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGgag                                                     >  1:2485440/1‑70 (MQ=255)
                    gACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCTTGCCAGCGgggac                                                   <  1:4978718/71‑2 (MQ=255)
                     accaccAATGAAGAACTCTAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac                                                                    <  1:5526757/53‑1 (MQ=255)
                      ccaccaATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAAc                                                 >  1:1245625/1‑71 (MQ=255)
                      ccaccaATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAAc                                                 >  1:1928819/1‑71 (MQ=255)
                        accaATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGaa                                                   <  1:5295457/67‑1 (MQ=255)
                           gaTGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTg                                            <  1:5022301/70‑1 (MQ=255)
                           actGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCt                                             <  1:5183383/68‑1 (MQ=255)
                           aaTGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGcc                                                            >  1:3819135/1‑55 (MQ=255)
                           aaTGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGcc                                                            >  1:5497285/1‑55 (MQ=255)
                            aTGAAGAATTCAAAACGGGCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGc                                           <  1:162148/71‑1 (MQ=255)
                             tGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCt                                             <  1:3702050/68‑1 (MQ=255)
                              gaagaaCTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAAc                                                 <  1:3077125/63‑1 (MQ=255)
                              gaagaaCTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAAc                                                 <  1:1030113/63‑1 (MQ=255)
                               aagaaTTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCg                                         <  1:4965131/70‑1 (MQ=255)
                               aagaaCTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCgg                                        <  1:3482038/71‑1 (MQ=255)
                               aagaaCTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCg                                         >  1:2914009/1‑70 (MQ=255)
                                agaaCTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAAc                                                 <  1:4604216/61‑1 (MQ=255)
                                 gaaTTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTac                                                                    <  1:3750045/41‑1 (MQ=19)
                                 gaaTTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGa                                       >  1:2674907/1‑70 (MQ=255)
                                    ttCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacggcg                                                                >  1:573003/2‑42 (MQ=16)
                                    ttCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacg                                                                   <  1:3141335/38‑1 (MQ=21)
                                    ttCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacg                                                                   <  1:5389028/38‑1 (MQ=21)
                                    ttCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacg                                                                   <  1:188270/38‑1 (MQ=21)
                                    ttCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAg                                                          <  1:1416983/47‑1 (MQ=19)
                                    ttCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAg                                                          <  1:5411983/47‑1 (MQ=19)
                                    ttCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAg                                                          <  1:2235573/47‑1 (MQ=19)
                                     tCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCg                                         >  1:4740757/1‑64 (MQ=255)
                                     tCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCg                                         >  1:2266241/1‑64 (MQ=255)
                                     tCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTc                                  >  1:5697636/1‑71 (MQ=255)
                                      cAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATAtt                                   >  1:4524972/1‑69 (MQ=255)
                                      cAAAACGGTCGGTGATTTCCGGGTTAACATCATTacgg                                                                  >  1:5282043/1‑37 (MQ=16)
                                       aaaaCGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTccg                                >  1:4684276/1‑69 (MQ=255)
                                       aaaGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGa                                       >  1:1058383/1‑64 (MQ=255)
                                         aacggtcggtGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTa                              <  1:5613074/69‑1 (MQ=255)
                                         aacggtcggtGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTa                              <  1:2695751/69‑1 (MQ=255)
                                         aGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTa                              <  1:4494449/71‑1 (MQ=255)
                                         aGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTa                              <  1:5057228/71‑1 (MQ=255)
                                          gCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACgcgc                                                             >  1:766922/1‑39 (MQ=255)
                                          gCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACgcgc                                                             >  1:1776076/1‑39 (MQ=255)
                                          gCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACgcgc                                                             >  1:2978820/1‑39 (MQ=255)
                                          gCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTaa                             >  1:2623724/1‑71 (MQ=255)
                                           cggtcggtGATTTCCGGGTTAACATCATTACGGCGTGCCAg                                                          <  1:3392334/41‑1 (MQ=19)
                                           cggtcggtGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGggga                                                    >  1:3525716/1‑47 (MQ=19)
                                           cGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAAt                            <  1:2902075/71‑1 (MQ=255)
                                            ggTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGata                                     >  1:3379239/1‑61 (MQ=255)
                                                tgtgATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg                                                        <  1:1272112/38‑1 (MQ=255)
                                                tgtgATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg                                                        <  1:5655235/38‑1 (MQ=255)
                                                tgtgATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACtt                                               <  1:3115275/47‑1 (MQ=255)
                                                ggtgATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGa                                       >  1:546466/2‑55 (MQ=255)
                                                 gtgATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGt                      >  1:4739304/1‑71 (MQ=255)
                                                 gtgATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGcc                                          <  1:3685336/51‑1 (MQ=255)
                                                 gtgATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGcc                                          <  1:4504936/51‑1 (MQ=255)
                                                  tgATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGatat                                    <  1:2685242/56‑1 (MQ=255)
                                                  tgATTTCCGGGTTAACGTCGTTACGACGCGCAAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTc                     >  1:4597413/1‑71 (MQ=255)
                                                  tgATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGtt                     <  1:310383/71‑2 (MQ=255)
                                                    aTTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACtt                                               >  1:1742510/1‑43 (MQ=255)
                                                        ccGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAAc                                                 <  1:645268/37‑1 (MQ=255)
                                                         cGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGaa              >  1:239370/1‑71 (MQ=255)
                                                          gggTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGa               <  1:3645299/69‑1 (MQ=255)
                                                          gggTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGa               <  1:2620717/69‑1 (MQ=255)
                                                            gTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAAt             >  1:5534655/1‑69 (MQ=255)
                                                            gTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCa           <  1:4157015/71‑1 (MQ=255)
                                                            gTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCa           <  1:5486266/71‑1 (MQ=255)
                                                             ttAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAg          <  1:5676097/71‑1 (MQ=255)
                                                             ttAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAg          <  1:2243293/71‑1 (MQ=255)
                                                               aaCGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGa         <  1:1599594/70‑1 (MQ=255)
                                                               aaCATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGaa              >  1:5617751/1‑65 (MQ=255)
                                                               aaCATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGaa              >  1:1530850/1‑65 (MQ=255)
                                                               aaCATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGAt        >  1:4055516/1‑71 (MQ=255)
                                                                 cgtcgtTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATg                           <  1:2597515/50‑1 (MQ=255)
                                                                 cgtcgtTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATg                           <  1:3767432/50‑1 (MQ=255)
                                                                   tcgtTACGACGCGCCAGCGGAGAAACTTCTGCCGGa                                       <  1:3596984/36‑1 (MQ=255)
                                                                     gtTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCtt  >  1:2449454/1‑71 (MQ=255)
                                                                     gtTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCtt  <  1:3358170/71‑1 (MQ=255)
                                                                     |                                                                      
AAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTT  >  minE/1933162‑1933301

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