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
A2 F28 I1 R1 155 60.3 2039550 99.3% 2025273 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,178,919 A→G T269A (ACT→GCT)  tolC → outer membrane channel TolC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,178,9190AG98.2% 190.2 / ‑4.6 56T269A (ACT→GCT) tolCouter membrane channel TolC
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (21/34);  total (21/35)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01

TAAAACCGACAAACCACAGCCGGTTAACGCGCTGCTGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGACTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAATATGGGCCAGAACAAAGTTGGCCTGAGCTTCTCGCT  >  NC_000913/3178783‑3179049
                                                                                                                                        |                                                                                                                                  
tAAAACCGACAAACCACAGCCGGTTAACGCGCTGCTGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGctc                                                                                                                                 >  1:343028/1‑140 (MQ=255)
 aaaaCCGACAAACCACAGCCGGTTAACGCGCTGCTGAAAGGAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGctct                                                                                                                                <  2:1013697/140‑1 (MQ=255)
        aCAAACCACAGCCGGTTAACGCGCTGCTGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTa                                                                                                                         <  1:503995/140‑1 (MQ=255)
                      gTTAACGCGCTGCTGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCgg                                                                                                           >  1:106316/1‑140 (MQ=255)
                      gTTAACGCGCTGCTGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCgg                                                                                                           >  1:148655/1‑140 (MQ=255)
                      gTTAACGCGCTGCTGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCgg                                                                                                           >  1:51418/1‑140 (MQ=255)
                       ttAACGCGCTGCTGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCggg                                                                                                          <  1:431168/140‑1 (MQ=255)
                          aCGCGCTGCTGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCATGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGAtt                                                                                                       <  1:821648/140‑1 (MQ=255)
                              gctgctGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTg                                                                                                   <  1:584922/140‑1 (MQ=255)
                               ctgctgAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGa                                                                                                  <  2:929945/140‑1 (MQ=255)
                               ctgctgAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGa                                                                                                  <  1:542762/140‑1 (MQ=255)
                                tgctgAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGac                                                                                                 >  2:113236/1‑140 (MQ=255)
                                tgctgAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGac                                                                                                 <  1:540964/140‑1 (MQ=255)
                                tgctgAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGac                                                                                                 <  2:306089/140‑1 (MQ=255)
                                tgctgAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGac                                                                                                 <  1:618327/140‑1 (MQ=255)
                                tgctgAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCCGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGac                                                                                                 <  1:203356/140‑1 (MQ=255)
                                 gctgAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGaca                                                                                                <  1:638999/140‑1 (MQ=255)
                                          agCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTtata                                                                                       >  2:377147/1‑140 (MQ=255)
                                            ccGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGac                                                                                                 <  2:740867/128‑1 (MQ=255)
                                            ccGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGac                                                                                                 >  1:740867/1‑128 (MQ=255)
                                            ccGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGc                                                                                     >  2:1013727/1‑140 (MQ=255)
                                            ccGAAAAACACAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGc                                                                                     >  2:814358/1‑140 (MQ=255)
                                                             tCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCgtgg                                                                    >  2:540206/1‑140 (MQ=255)
                                                                cTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGc                                                                 <  1:903888/140‑1 (MQ=255)
                                                                cTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGc                                                                 <  1:205727/140‑1 (MQ=255)
                                                                  gTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCg                                                               <  1:113236/140‑1 (MQ=255)
                                                                        ggCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTa                                                         <  1:977612/140‑1 (MQ=255)
                                                                        ggCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTa                                                         <  2:106316/140‑1 (MQ=255)
                                                                           aCGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTAccc                                                      >  2:216092/1‑140 (MQ=255)
                                                                             gCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCgtggt                                                                   >  2:432224/1‑125 (MQ=255)
                                                                             gCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCgtggt                                                                   <  1:432224/125‑1 (MQ=255)
                                                                             gCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTAccc                                                      >  2:370785/1‑138 (MQ=255)
                                                                             gCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTAccc                                                      <  1:370785/138‑1 (MQ=255)
                                                                             gCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAg                                                    >  1:746762/1‑140 (MQ=255)
                                                                               ttGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTa                                                         <  2:476306/133‑1 (MQ=255)
                                                                               ttGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTa                                                         >  1:476306/1‑133 (MQ=255)
                                                                                 gAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATg                                                >  2:267501/1‑140 (MQ=255)
                                                                                  aGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGa                                               <  2:787079/140‑1 (MQ=255)
                                                                                  aGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGa                                               >  1:787079/1‑140 (MQ=255)
                                                                                  aGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGACTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGa                                               <  1:983362/140‑1 (MQ=255)
                                                                                   gCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGAc                                              <  2:592116/140‑1 (MQ=255)
                                                                                      aGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGAt                                           <  2:304548/140‑1 (MQ=255)
                                                                                      aGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGAt                                           <  2:343028/140‑1 (MQ=255)
                                                                                        gACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAg                                         <  2:847973/140‑1 (MQ=255)
                                                                                             ggCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGAc                                              >  1:706267/1‑130 (MQ=255)
                                                                                             ggCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAata                                    >  1:552598/1‑140 (MQ=255)
                                                                                             ggCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAata                                    >  1:400625/1‑140 (MQ=255)
                                                                                             ggCGCGCGAGCAAATTCGCCAGGCGAAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGAc                                              <  2:706267/130‑1 (MQ=255)
                                                                                                       cAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAATATGGGCCAGaa                          <  1:908589/140‑1 (MQ=255)
                                                                                                       cAAATTCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAATATGGGCCAGaa                          <  2:51418/140‑1 (MQ=255)
                                                                                                            tCGCCAGGCGCAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAATATGGGCCAGAACAAAg                     <  1:267501/140‑1 (MQ=255)
                                                                                                                   gcgcAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAATATGGGCCAGAACAAAGTTGGCCt              <  1:1013727/140‑1 (MQ=255)
                                                                                                                   gcgcAGGATGGTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGATACCCAGTATGACGATAGCAATATGGGCCAGAACAAAGTTGGCCt              <  2:106643/140‑1 (MQ=255)
                                                                                                                             gTCACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAATATGGGCCAGAACAAAGTTGGCCTGAGCTTCTCg    >  1:532137/1‑140 (MQ=255)
                                                                                                                               cACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAATATGGGCCAGAACAAAGTTGGCCTGAGCTTCTCGCt  <  2:746762/140‑1 (MQ=255)
                                                                                                                               cACTTACCGGCTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAATATGGGCCAGAACAAAGTTGGCCTGAGCTTCTCGCt  <  1:442291/140‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                  
TAAAACCGACAAACCACAGCCGGTTAACGCGCTGCTGAAAGAAGCCGAAAAACGCAACCTGTCGCTGTTACAGGCACGCTTGAGCCAGGACCTGGCGCGCGAGCAAATTCGCCAGGCGCAGGATGGTCACTTACCGACTCTGGATTTAACGGCTTCTACCGGGATTTCTGACACCTCTTATAGCGGTTCGAAAACCCGTGGTGCCGCTGGTACCCAGTATGACGATAGCAATATGGGCCAGAACAAAGTTGGCCTGAGCTTCTCGCT  >  NC_000913/3178783‑3179049

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A