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 1,933,312 T→A 30.4% E377D (GAA→GAT)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,3120TA30.4% 239.8 / 139.9 161E377D (GAA→GAT) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base T (55/57);  new base A (21/28);  total (76/85)
Fisher's exact test for biased strand distribution p-value = 4.96e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.15e-01

Only 100 of 175 total aligned reads displayed.

CCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGC  >  minE/1933242‑1933380
                                                                      |                                                                    
   gCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACttcttc                                                                    >  1:137987/1‑70 (MQ=255)
         aaaCTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAtc                                                             <  1:3332629/71‑1 (MQ=255)
            cTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAg                                                                <  1:157479/65‑1 (MQ=255)
            cTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAg                                                                <  1:5651827/65‑1 (MQ=255)
             ttCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGAtctctg                                                         >  1:1675878/1‑69 (MQ=255)
             ttCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCgg                                                         >  1:659157/1‑71 (MQ=255)
              tCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAt                                                              >  1:5461863/1‑65 (MQ=255)
              tCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAt                                                              >  1:4072003/1‑65 (MQ=255)
              tCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAt                                                              >  1:2316289/1‑65 (MQ=255)
               cTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGt                                                        >  1:1264060/1‑70 (MQ=255)
                  ccGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAAc                                                     <  1:3331715/70‑1 (MQ=255)
                  ccGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAAc                                                     <  1:5257695/70‑1 (MQ=255)
                  ccGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAAc                                                     <  1:4175604/70‑1 (MQ=255)
                   cGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGAcaa                                                   <  1:1224416/71‑3 (MQ=255)
                   cGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGAcaa                                                   <  1:3572823/71‑3 (MQ=255)
                   cGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGAcaa                                                   <  1:3931061/71‑3 (MQ=255)
                    ggATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGa                                                                  <  1:2303409/55‑1 (MQ=255)
                      atatTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATAc                                                >  1:2914735/1‑71 (MQ=255)
                      atatTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATAc                                                >  1:5397678/1‑71 (MQ=255)
                         ttCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGAt                                                  <  1:248214/66‑1 (MQ=255)
                          tCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGa                                                                  <  1:5684663/49‑1 (MQ=255)
                          tCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGcc                                            >  1:3587386/1‑71 (MQ=255)
                           ccgTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTcc                                            >  1:880591/3‑70 (MQ=255)
                           cAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCg                                                          >  1:4408036/1‑56 (MQ=255)
                           cAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGcc                                            >  1:1606530/1‑70 (MQ=255)
                            cgTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTcc                                            >  1:4073074/2‑69 (MQ=255)
                            aGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCa                                          <  1:3773351/71‑1 (MQ=255)
                              taataaAGGTTGGCTGAATCAGATGTGCTTCTGCCACttcatca                                                                   <  1:2489814/44‑2 (MQ=37)
                              taataaAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCaac                                        <  1:2622100/71‑3 (MQ=255)
                               aaTGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAg                                                                <  1:2172081/46‑1 (MQ=255)
                               aaTGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGa                                        <  1:3029277/70‑1 (MQ=255)
                               aaTGAAGCTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAc                                       >  1:3738040/1‑71 (MQ=255)
                                aTGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAcc                                      >  1:3130815/1‑71 (MQ=255)
                                aTGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAcc                                      >  1:5092796/1‑71 (MQ=255)
                                aTGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAcc                                      >  1:2666226/1‑71 (MQ=255)
                                 tGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAtc                                                             <  1:3058260/47‑1 (MQ=255)
                                 tGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGa                                                   <  1:171847/57‑1 (MQ=255)
                                 tGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGa                                                   <  1:4639703/57‑1 (MQ=255)
                                 tGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGcc                                            <  1:3814991/64‑1 (MQ=255)
                                   aaGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGAtctct                                                          >  1:1996093/1‑47 (MQ=37)
                                   aaGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATa                                                 >  1:2208617/1‑57 (MQ=255)
                                   aaGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAccc                                     >  1:1942019/1‑69 (MQ=255)
                                   aaGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAccc                                     >  1:5525834/1‑69 (MQ=255)
                                    aGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCAg                                  <  1:375750/71‑1 (MQ=255)
                                        tggCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCAGcttt                              >  1:2315922/2‑69 (MQ=255)
                                         ggCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAc                                       <  1:2444210/61‑1 (MQ=255)
                                         ggCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAc                                       <  1:4098982/61‑1 (MQ=255)
                                         ggCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGctct                              <  1:3906577/70‑1 (MQ=255)
                                         ggCTGAATCAGATGTGCTTCTGCCACTTCATCAAAg                                                                <  1:5275188/36‑1 (MQ=37)
                                         ggCTGAATCAGATGTGCTTCTGCCACTTCATCAAAg                                                                <  1:4993804/36‑1 (MQ=37)
                                         ggCTGAATCAGATGTGCTTCTGCCACTTCATCAAAg                                                                <  1:2047972/36‑1 (MQ=37)
                                         ggCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCa                                   >  1:1904783/1‑65 (MQ=255)
                                         ggCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCa                                   >  1:3610316/1‑65 (MQ=255)
                                             gAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGtga                                                      >  1:4453235/1‑40 (MQ=25)
                                             gAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGtga                                                      >  1:139788/1‑40 (MQ=25)
                                             gAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCAGcttt                              >  1:3166104/1‑64 (MQ=255)
                                              aaTCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTtctc                          <  1:3421519/69‑1 (MQ=255)
                                              aaTCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCAGCTTTtctc                          <  1:1853951/69‑1 (MQ=255)
                                              aaTCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCAGCTTTtctc                          <  1:1493536/69‑1 (MQ=255)
                                              aaTCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCAGCTTTtctc                          <  1:2721236/69‑1 (MQ=255)
                                               aTCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAcc                                      <  1:3894561/56‑1 (MQ=255)
                                               aTCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTtctc                          <  1:4173209/68‑1 (MQ=255)
                                                tCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGa                                                   <  1:2143698/42‑1 (MQ=255)
                                                tCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGa                                                   <  1:215251/42‑1 (MQ=255)
                                                tCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAcccc                                    >  1:336830/1‑57 (MQ=255)
                                                tCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGAcccc                                    >  1:2997193/1‑57 (MQ=255)
                                                tCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGAcaa                                                   <  1:4731100/42‑3 (MQ=21)
                                                tCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCAGCTTTTCTCTAcc                      >  1:4148008/1‑70 (MQ=255)
                                                 cAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGa                                                   <  1:2003497/41‑1 (MQ=255)
                                                 cAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCaa                        >  1:1590314/1‑68 (MQ=255)
                                                  aGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGcc                                            <  1:133440/47‑1 (MQ=255)
                                                  aGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGt                     <  1:2902844/70‑1 (MQ=255)
                                                  aGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTg                    >  1:4659103/1‑71 (MQ=255)
                                                  aGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTg                    <  1:2546909/71‑1 (MQ=255)
                                                  aGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCAGCTTTTCTCTAccgt                    <  1:3852109/71‑4 (MQ=255)
                                                   gATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTgg                   <  1:4687913/71‑1 (MQ=255)
                                                     tgtgCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGAt                 <  1:5369291/71‑1 (MQ=255)
                                                     tgtgCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGAt                 <  1:5632467/71‑1 (MQ=255)
                                                     tgtgCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCa                                          <  1:1279444/46‑1 (MQ=19)
                                                     tgtgCTTCTGCCACTTCATCAAAGATCTCTGTAACAATACGTCCCa                                          <  1:4562239/46‑1 (MQ=25)
                                                      gtgCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATa                                                 >  1:662941/1‑38 (MQ=255)
                                                      gtgCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATa                                                 >  1:471681/1‑38 (MQ=255)
                                                      gtgCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCa                                          >  1:1040531/1‑45 (MQ=255)
                                                      gtgCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCtcttc                            >  1:4011272/1‑59 (MQ=255)
                                                      gtgCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATg                >  1:2393523/1‑71 (MQ=255)
                                                       tgCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATg                >  1:1089477/1‑70 (MQ=255)
                                                       tgCTTCTGCCACTTCATCAAAGATCTCTGTGACAATACGTCCCAACCCCCAGCTTTTCTCTAcc                      <  1:3678908/64‑2 (MQ=255)
                                                        gCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCa                         <  1:3461882/60‑1 (MQ=255)
                                                         cTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTgg                   >  1:347108/1‑65 (MQ=255)
                                                         cTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGcc              >  1:1034932/1‑70 (MQ=255)
                                                         cTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGcc              >  1:1536290/1‑70 (MQ=255)
                                                           tCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCa                                          >  1:2966395/1‑40 (MQ=255)
                                                            cTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGCCCCCAGCtcttc                            >  1:2372027/1‑53 (MQ=255)
                                                                 aCTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCtctt                             >  1:5169978/1‑47 (MQ=255)
                                                                  cttcttCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGAtt      >  1:5553026/1‑69 (MQ=255)
                                                                    tcttcGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAg   >  1:2793419/1‑70 (MQ=255)
                                                                     cttcGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGc  <  1:3662298/70‑1 (MQ=255)
                                                                     cttcGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGc  <  1:697422/70‑1 (MQ=255)
                                                                     cttcGAAGATCTAGGTAACGATACTGCCAAGACCCCAGct                                >  1:4581491/1‑40 (MQ=255)
                                                                      ttcGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGAt       <  1:1316710/64‑1 (MQ=255)
                                                                      |                                                                    
CCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGC  >  minE/1933242‑1933380

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