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
A1 F28 I1 R1 163 52.9 1786516 99.3% 1774010 139.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,705,767 A→G R8R (CGT→CGC)  dppB ← dipeptide ABC transporter membrane subunit DppB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,705,7670AG98.2% 196.2 / ‑5.1 57R8R (CGT→CGC) dppBdipeptide ABC transporter membrane subunit DppB
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (32/24);  total (32/25)
Fisher's exact test for biased strand distribution p-value = 4.39e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGCGTGACGCTCTGGGGAGATCCCACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAACGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGAATGAAGTATTGCTGCCGGATGGCG  >  NC_000913/3705641‑3705900
                                                                                                                              |                                                                                                                                     
cgcgTGACGCTCTGGGGAGATCCCACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATaa                                                                                                                          >  1:198747/1‑140 (MQ=255)
  cgTGACGCTCTGGGGAGATCCCACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAAc                                                                                                                        >  1:34849/1‑140 (MQ=255)
     gACGCTCTGGGGAGATCCCACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGc                                                                                                                     >  2:540090/1‑140 (MQ=255)
         ctggggggAGACCCCACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACa                                                                                                                 <  1:603329/136‑1 (MQ=255)
            tGGGGAGATCCCACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATaa                                                                                                              >  1:6946/1‑140 (MQ=255)
             ggggAGATCCCACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAAc                                                                                                             <  1:454786/140‑1 (MQ=255)
               ggacttCCCCCGCTGGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAAccc                                                                                                           <  1:251604/135‑1 (MQ=255)
                 agaTCCCACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCgg                                                                                                         <  2:34849/140‑1 (MQ=255)
                      ccACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATtct                                                                                                    <  2:620055/140‑1 (MQ=255)
                      ccACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATtct                                                                                                    >  1:626804/1‑140 (MQ=255)
                      ccACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATtct                                                                                                    >  1:466430/1‑140 (MQ=255)
                      ccACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATtct                                                                                                    >  2:269725/1‑140 (MQ=255)
                             cgcccgccATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAgg                                                                                             >  2:39735/1‑139 (MQ=255)
                              gcccgccATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCgg                                                                                                         >  2:201672/1‑127 (MQ=255)
                              gcccgccATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCgg                                                                                                         <  1:201672/127‑1 (MQ=255)
                               cccgccATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACAAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGa                                                                                           >  1:820592/1‑140 (MQ=255)
                                   ccATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCg                                                                                       <  2:6946/140‑1 (MQ=255)
                                   ccATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCg                                                                                       <  1:540090/140‑1 (MQ=255)
                                    cATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGc                                                                                      >  2:797405/1‑140 (MQ=255)
                                             caCCGGATCGCTCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGaa                                                                             <  2:774260/140‑1 (MQ=255)
                                             caCCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGaa                                                                             >  1:261312/1‑140 (MQ=255)
                                                cGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTg                                                                          <  2:466430/140‑1 (MQ=255)
                                                cGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTg                                                                          >  2:671082/1‑140 (MQ=255)
                                                cGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTg                                                                          <  2:758667/140‑1 (MQ=255)
                                                cGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACAAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTg                                                                          <  2:820592/140‑1 (MQ=255)
                                                  gATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCg                                                                        >  2:238492/1‑140 (MQ=255)
                                                  gATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCg                                                                        >  2:32044/1‑140 (MQ=255)
                                                   aTCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCgt                                                                       <  1:672819/140‑1 (MQ=255)
                                                      gCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTg                                                                          <  2:356451/134‑1 (MQ=255)
                                                      gCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTg                                                                          >  1:356451/1‑134 (MQ=255)
                                                       cccGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCt                                                                   >  1:891261/1‑140 (MQ=255)
                                                       cccGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCt                                                                   >  1:462092/1‑140 (MQ=255)
                                                       cccGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCt                                                                   >  1:421361/1‑140 (MQ=255)
                                                       cccGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCt                                                                   >  2:207766/1‑140 (MQ=255)
                                                               cATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCt                                                           <  2:286386/140‑1 (MQ=255)
                                                                 tgtgGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTca                                                         >  2:332098/1‑140 (MQ=255)
                                                                 tgtgGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTca                                                         >  2:538732/1‑140 (MQ=255)
                                                                          aGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAAt                                                >  2:6590/1‑140 (MQ=255)
                                                                          aGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAAt                                                >  2:708539/1‑140 (MQ=255)
                                                                           ggCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAAtt                                               >  1:125261/1‑140 (MQ=255)
                                                                               aaTGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCg                                           >  1:841457/1‑140 (MQ=255)
                                                                                aTGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGc                                          <  2:841457/140‑1 (MQ=255)
                                                                                 tgtgAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAACGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGcc                                         <  1:762205/140‑1 (MQ=255)
                                                                                    gagaAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCtt                                      <  1:671082/140‑1 (MQ=255)
                                                                                      gaAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTAt                                    >  1:527334/1‑140 (MQ=255)
                                                                                            tAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACa                              <  1:332098/140‑1 (MQ=255)
                                                                                            tAATACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACa                              <  1:238492/140‑1 (MQ=255)
                                                                                              aTACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAgg                            <  1:269725/140‑1 (MQ=255)
                                                                                              aTACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAgg                            <  1:207766/140‑1 (MQ=255)
                                                                                               tACCGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAggg                           >  2:237292/1‑140 (MQ=255)
                                                                                                 ccGATAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGaa                         <  1:708539/140‑1 (MQ=255)
                                                                                                    aTAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGAATGa                      >  1:495139/1‑140 (MQ=255)
                                                                                                    aTAAACGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGAATGa                      >  2:825765/1‑140 (MQ=255)
                                                                                                         cGTGGGGATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGAATGAAGTAt                 <  2:125261/140‑1 (MQ=255)
                                                                                                             gggATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGAATGAAGTATtgct             >  1:111936/1‑140 (MQ=255)
                                                                                                              ggATGACGAGTCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGAATGAAGTATtgctg            <  2:462092/140‑1 (MQ=255)
                                                                                                                        tCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGAATGAAGTATTGCTGCCGGATGgcg  <  2:261312/140‑1 (MQ=255)
                                                                                                                        tCCCAAGCGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGAATGAAGTATTGCTGCCGGATGgcg  >  2:5278/1‑140 (MQ=255)
                                                                                                                              |                                                                                                                                     
CGCGTGACGCTCTGGGGAGATCCCACGTTCGCCCGCCATGATCATCACCGGATCGCCCGGGATCATGTGGACAAAGGCAAATGTGAGAAGGGTAATACCGATAAACGTGGGGATGACGAGTCCCAAACGTCGGAGAATAAACTGCAACATAACCCGGATTCTCTATAGTGACCCGCAGCCTGGAACTGCGTGTCTGTATTGCTCACAAATCAATTCCCGCCCTTATCGGACAGGGAATGAAGTATTGCTGCCGGATGGCG  >  NC_000913/3705641‑3705900

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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