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
A11 F28 I1 R1 161 75.5 2581324 99.3% 2563254 138.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,689,387 G→A A292V (GCG→GTG)  bcsZ ← endo‑1,4‑D‑glucanase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,689,3870GA98.3% 191.9 / ‑4.6 58A292V (GCG→GTG) bcsZendo‑1,4‑D‑glucanase
Reads supporting (aligned to +/- strand):  ref base G (1/0);  new base A (27/30);  total (28/30)
Fisher's exact test for biased strand distribution p-value = 4.83e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01

GGTCAGCACATAGTTGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCGCTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGCCTACCCACATGTAAAC  >  NC_000913/3689251‑3689523
                                                                                                                                        |                                                                                                                                        
ggTCAGCACATAGTTGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACtt                                                                                                                                       <  2:847793/140‑1 (MQ=255)
ggTCAGCACATAGTTGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACtt                                                                                                                                       >  2:3141/1‑140 (MQ=255)
 gTCAGCACATAGTTGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACttt                                                                                                                                      <  2:1183946/140‑1 (MQ=255)
    aGCACATAGTTGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTccc                                                                                                                                   <  1:103493/140‑1 (MQ=255)
    aGCACATAGTTGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTccc                                                                                                                                   >  2:101191/1‑140 (MQ=255)
      cacaTAGTTGTAATAGGCATCGCTGCCGGGAAAATTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCg                                                                                                                                 >  1:1184000/1‑140 (MQ=255)
           aGTTGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGcc                                                                                                                            >  2:1281465/1‑140 (MQ=255)
           aGTTGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGcc                                                                                                                            >  2:275415/1‑140 (MQ=255)
              tGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCcaca                                                                                                                         <  2:1023724/140‑1 (MQ=255)
                tAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACt                                                                                                                                        >  2:689269/1‑123 (MQ=255)
                   tAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCAc                                                                                                                    >  1:529604/1‑140 (MQ=255)
                     ggCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACtt                                                                                                                  >  2:749339/1‑140 (MQ=255)
                     ggCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACtt                                                                                                                  >  2:106558/1‑140 (MQ=255)
                       cATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCGCTTTCCCCGTAGCCACATCCACtttt                                                                                                                >  2:583547/1‑140 (MQ=255)
                       cATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACtttt                                                                                                                >  2:450288/1‑140 (MQ=255)
                       cATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACtttt                                                                                                                >  1:765045/1‑140 (MQ=255)
                       cATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACtttt                                                                                                                >  2:1051682/1‑140 (MQ=255)
                       cATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACtttt                                                                                                                >  1:1011201/1‑140 (MQ=255)
                       cATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACtttt                                                                                                                >  2:144977/1‑140 (MQ=255)
                       cATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGCCCTTTACCCTGCACTTTCCCCGAACCCACTTCCACtttt                                                                                                                >  1:1281900/1‑140 (MQ=255)
                         tCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTc                                                                                                              <  2:597280/140‑1 (MQ=255)
                          cGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTcc                                                                                                             >  1:622892/1‑140 (MQ=255)
                          cGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTcc                                                                                                             >  1:644320/1‑140 (MQ=255)
                                 gggAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGAt                                                                                                      <  1:1281465/140‑1 (MQ=255)
                                   gAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATaa                                                                                                    <  2:1011201/140‑1 (MQ=255)
                                   gAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATaa                                                                                                    <  2:765045/140‑1 (MQ=255)
                                               ccACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCa                                                                                        <  2:622892/140‑1 (MQ=255)
                                                  cgcgCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTg                                                                                     >  1:571941/1‑140 (MQ=255)
                                                                aCGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCgg                                                                       <  1:275415/140‑1 (MQ=255)
                                                                      tGCGCATCGGGGTTTTTTAAAAAGGGCAGGATGGCGGGCAAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTaaa                                                                 <  2:1281900/140‑1 (MQ=255)
                                                                      tGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTaaa                                                                 <  1:496949/140‑1 (MQ=255)
                                                                      tGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTaaa                                                                 <  1:1051682/140‑1 (MQ=255)
                                                                             cgcgGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTg                                                          <  1:3141/140‑1 (MQ=255)
                                                                              gcgGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGa                                                         <  2:1184000/140‑1 (MQ=255)
                                                                                    ttGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATcc                                                   <  1:101191/140‑1 (MQ=255)
                                                                                       tAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAg                                                        >  2:1269274/1‑132 (MQ=255)
                                                                                       tAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAg                                                        <  1:1269274/132‑1 (MQ=255)
                                                                                           aaGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCttt                                            <  1:450288/140‑1 (MQ=255)
                                                                                            aGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCtttt                                           >  2:172320/1‑140 (MQ=255)
                                                                                             gggCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCttttt                                          <  1:106558/140‑1 (MQ=255)
                                                                                                   caTGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGAt                                    >  2:654518/1‑140 (MQ=255)
                                                                                                     tGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCg                                  <  2:529604/140‑1 (MQ=255)
                                                                                                        cggcAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGAt                                    <  1:65405/135‑1 (MQ=255)
                                                                                                        cggcAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGAt                                    >  2:65405/1‑135 (MQ=255)
                                                                                                           cAGAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCa                            <  2:51167/140‑1 (MQ=255)
                                                                                                             gAAAAACCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAgg                          >  2:48328/1‑140 (MQ=255)
                                                                                                              aaaaaCCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGc                         <  2:571941/140‑1 (MQ=255)
                                                                                                                aaaCCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGcat                       <  2:330270/140‑1 (MQ=255)
                                                                                                                aaaCCGACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCACTGTCAGGcat                       <  1:654518/140‑1 (MQ=255)
                                                                                                                     gACTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGc                  <  1:172320/140‑1 (MQ=255)
                                                                                                                      aCTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGcc                 <  1:18873/140‑1 (MQ=255)
                                                                                                                      aCTGGTCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGcc                 <  2:333818/140‑1 (MQ=255)
                                                                                                                           tCCTTTACCCTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGCCTAccc            >  1:522957/1‑140 (MQ=255)
                                                                                                                                    cTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGCCTACCCACATGTaaa   >  1:326219/1‑140 (MQ=255)
                                                                                                                                    cTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGCCTACCCACATGTaaa   >  2:383876/1‑140 (MQ=255)
                                                                                                                                    cTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGCCTACCCACATGTaaa   <  2:326219/140‑1 (MQ=255)
                                                                                                                                    cTGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGCCTACCCACATGTaaa   >  2:344489/1‑140 (MQ=255)
                                                                                                                                     tGCACTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGCCTACCCACATGTAAAc  <  2:522957/140‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                        
GGTCAGCACATAGTTGTAATAGGCATCGCTGCCGGGAAAGTTATCGGCCACGCGCTGGCGCTGAACGGCCTGCGCATCGCGGTTTTGTAAAAAGGGCAGCATGGCGGCAGAAAAACCGACTGGTCCTTTACCCTGCGCTTTCCCCGTAGCCACATCCACTTTTTCCGGCGGATAACCGTTTTTCTCAGTGAATGTCGCCATCGGTTTAAACCGGTTGAGCATCCGCGCTTTTTGCGGATCGCTGTCAGGCATCATGCCTACCCACATGTAAAC  >  NC_000913/3689251‑3689523

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