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 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 834,641 G→A 20.1% L1033L (CTG→CTA) ‡ narG → nitrate reductase 1, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE834,6410GA20.1% 155.1 / 31.9 75L1033L (CTG→CTA) ‡narGnitrate reductase 1, alpha subunit
Reads supporting (aligned to +/- strand):  ref base G (32/27);  new base A (6/9);  total (39/36)
Fisher's exact test for biased strand distribution p-value = 3.93e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.40e-01

CCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCG  >  minE/834573‑834708
                                                                    |                                                                   
ccGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGAt                                                                   >  1:2931444/1‑71 (MQ=255)
 cGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATc                                                                  >  1:2420899/1‑71 (MQ=255)
    ccTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                               <  1:997730/71‑1 (MQ=255)
        gtctggtctgGAAGATGAACACTTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                               <  1:2066342/67‑1 (MQ=255)
        gtccggtctgGAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTgg                                                            <  1:3774248/70‑1 (MQ=255)
             gtctggAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACg                                                      >  1:578677/1‑71 (MQ=255)
             gtctggAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACg                                                      >  1:1977973/1‑71 (MQ=255)
              tctggAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACg                                                      <  1:3428785/70‑1 (MQ=255)
                  gAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctct                                                  <  1:887036/70‑1 (MQ=255)
                  gAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctct                                                  <  1:1248991/70‑1 (MQ=255)
                  gAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctct                                                  <  1:1625502/70‑1 (MQ=255)
                    aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                               >  1:1127115/1‑71 (MQ=255)
                    aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                               >  1:587615/1‑71 (MQ=255)
                    aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                               >  1:3472485/1‑71 (MQ=255)
                    aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                               >  1:3331147/1‑71 (MQ=255)
                    aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                               >  1:1381597/1‑71 (MQ=255)
                     gATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTgg                                              <  1:2667360/71‑1 (MQ=255)
                     gATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTgg                                              <  1:893974/71‑1 (MQ=255)
                      aTGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                               <  1:897873/53‑1 (MQ=255)
                       tGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtc                                            >  1:2139387/1‑71 (MQ=255)
                        gAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATg                                                             >  1:667060/1‑53 (MQ=255)
                         aaCACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                          <  1:552425/71‑1 (MQ=255)
                         aaCACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                          <  1:1873440/71‑1 (MQ=255)
                          tcacGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGctgt                                                  <  1:1475867/61‑3 (MQ=255)
                          tcacGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGgacgc                                          >  1:1666397/2‑69 (MQ=255)
                          acacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCg                                                          >  1:1314246/1‑54 (MQ=255)
                          acacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCg                                                          >  1:2481734/1‑54 (MQ=255)
                           cacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctc                                                   >  1:189805/1‑60 (MQ=255)
                           cacGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGctgtc                                                 >  1:826260/1‑62 (MQ=255)
                            acGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTa                                                        >  1:1628715/1‑54 (MQ=255)
                            acGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTa                                                        >  1:1998141/1‑54 (MQ=255)
                            acGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTa                                                        >  1:2798653/1‑54 (MQ=255)
                            acGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGgacgc                                          <  1:159881/68‑2 (MQ=255)
                            acGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAg                                       >  1:1962048/1‑71 (MQ=255)
                             cGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTg                                                                     <  1:1888435/40‑1 (MQ=255)
                                 tCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCa                                        >  1:3464236/1‑65 (MQ=255)
                                 tCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCa                                        >  1:3565001/1‑65 (MQ=255)
                                 tCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACt                                  >  1:1259746/1‑71 (MQ=255)
                                    tataaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCa                                        <  1:2323948/59‑1 (MQ=255)
                                     aCAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTa                               <  1:2709250/70‑1 (MQ=255)
                                      taaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTa                               <  1:3553339/68‑1 (MQ=255)
                                       aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCAt                                                              <  1:1515248/37‑1 (MQ=255)
                                       aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCAt                                                              <  1:1747078/37‑1 (MQ=255)
                                       aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt                              >  1:2042326/1‑69 (MQ=255)
                                        aCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCa                            <  1:965805/70‑1 (MQ=255)
                                        aCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAg                           >  1:807224/1‑71 (MQ=255)
                                         cgcgGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGgacgc                                          <  1:281607/55‑2 (MQ=255)
                                         cGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCaa                                    <  1:2240643/61‑1 (MQ=255)
                                         cGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAgg                          <  1:2041313/71‑1 (MQ=255)
                                            cGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt                        >  1:1650743/1‑70 (MQ=255)
                                             ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt                              <  1:2732990/63‑1 (MQ=255)
                                             ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt                              <  1:3104310/63‑1 (MQ=255)
                                              gTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctc                                                   <  1:2077042/41‑1 (MQ=255)
                                               ttACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc                     >  1:1316801/1‑70 (MQ=255)
                                                tACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCatcc                   <  1:3462352/71‑4 (MQ=255)
                                                tACACCAACGTTCACGAGCTTATCCCATGGCGTACGCTCTCTGGTCGTCa                                        >  1:655461/1‑50 (MQ=255)
                                                tACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACt                                  >  1:3221082/1‑56 (MQ=255)
                                                tACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACt                                  >  1:2049253/1‑56 (MQ=255)
                                                 acacCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCa                   <  1:3838051/70‑1 (MQ=255)
                                                   acCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAcc                    <  1:7733/67‑1 (MQ=255)
                                                   acCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTg                <  1:3906863/71‑1 (MQ=255)
                                                     cAACGTTCACGAGCTGATCCCATGGCGTACGctctc                                                 >  1:2888050/1‑36 (MQ=255)
                                                     cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgt                                             >  1:1363833/1‑40 (MQ=255)
                                                     cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGa              >  1:107192/1‑71 (MQ=255)
                                                     cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGa              >  1:1683362/1‑71 (MQ=255)
                                                         gTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGc           >  1:2720589/1‑70 (MQ=255)
                                                         gTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCg          >  1:3904524/1‑71 (MQ=255)
                                                           tCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGt         >  1:2369895/1‑70 (MQ=255)
                                                           tCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGt         >  1:1241453/1‑70 (MQ=255)
                                                            cACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAg                  >  1:2554934/1‑60 (MQ=255)
                                                              cGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAtt     <  1:269066/71‑1 (MQ=255)
                                                              cGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAtt     <  1:2117088/71‑1 (MQ=255)
                                                              cGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAtt     <  1:202207/71‑1 (MQ=255)
                                                               gAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt    <  1:205397/71‑1 (MQ=255)
                                                                aGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCa                                     <  1:2546258/37‑1 (MQ=255)
                                                                  cTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt    <  1:906536/68‑1 (MQ=255)
                                                                    gATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCg  <  1:519447/68‑1 (MQ=255)
                                                                    |                                                                   
CCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCG  >  minE/834573‑834708

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