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
A13 F1 I1 R1 778 68.7 3228504 93.4% 3015422 109.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,859,538 C→T L816L (CTG→TTG)  mutS → methyl‑directed mismatch repair protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,859,5380CT100.0% 184.7 / NA 57L816L (CTG→TTG) mutSmethyl‑directed mismatch repair protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (24/33);  total (24/33)

ACGGCCTGGCGGTTGCAGCTCTGGCAGGCGTGCCAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGCTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAATTCCCGATAG  >  NC_000913/2859404‑2859670
                                                                                                                                        |                                                                                                                                    
aCGGCCTGGCGGTTGCAGCTCTGGCAGGCGTGCCAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTc                                                                                                                                  <  1:18371/139‑1 (MQ=255)
    ccTGGCGGTTGCAGCTCTGGCAGGCGTGCCAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAAGTGTGGATGGTACGCAAATGTCTTTGTTGTCAg                                                                                                                                <  2:152392/139‑1 (MQ=255)
      tGGCGGTTGCAGCTCTGGCAGGCGTGCCAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTAcc                                                                                                                            <  2:1606933/139‑1 (MQ=255)
          ggTTGCAGCTCTGGCAGGCGTGCCAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCagaa                                                                                                                        <  1:943276/139‑1 (MQ=255)
          ggTTGCAGCTCTGGCAGGCGTGCCAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCagaa                                                                                                                        <  2:602493/139‑1 (MQ=255)
                       gCAGGCGTGCCAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTATGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTg                                                                                                           <  2:815546/139‑1 (MQ=255)
                             gTGCCAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCg                                                                                                     <  1:1280072/139‑1 (MQ=255)
                                 cAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGc                                                                                                 <  2:32814/139‑1 (MQ=255)
                                     agagGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTg                                                                                             >  2:928786/1‑139 (MQ=255)
                                       agGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGa                                                                                           <  2:29264/139‑1 (MQ=255)
                                         gTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGaaa                                                                                         <  2:1139183/139‑1 (MQ=255)
                                                 gcgcgcACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGAt                                                                                 >  2:569275/1‑139 (MQ=255)
                                                 gcgcgcACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGAt                                                                                 <  1:815796/139‑1 (MQ=255)
                                                  cgcgcACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGct                                                                                                <  1:1537364/123‑1 (MQ=255)
                                                  cgcgcACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGct                                                                                                >  2:1537364/1‑123 (MQ=255)
                                                  cgcgcACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATc                                                                                >  2:1027089/1‑139 (MQ=255)
                                                   gcgcACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTtgttgt                                                                                                                                   <  2:911464/87‑1 (MQ=255)
                                                   gcgcACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTtgttgt                                                                                                                                   >  1:911464/1‑87 (MQ=255)
                                                   gcgcACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATcc                                                                               >  1:1531219/1‑139 (MQ=255)
                                                    cgcACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCg                                                                              >  1:111012/1‑139 (MQ=255)
                                                                         gCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAg                                                         >  2:961905/1‑139 (MQ=255)
                                                                          cTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCcgcg                                                             <  2:238763/134‑1 (MQ=255)
                                                                          cTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCcgcg                                                             >  1:238763/1‑134 (MQ=255)
                                                                            ggAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGgcg                                                      <  1:1525534/139‑1 (MQ=255)
                                                                               aaGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTg                                                   <  2:1531219/139‑1 (MQ=255)
                                                                                 gCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGa                                                 <  1:1531632/139‑1 (MQ=255)
                                                                                   aTTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTAc                                                                                                                             <  1:876209/61‑1 (MQ=255)
                                                                                   aTTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTATTTGTTGTCAGTAc                                                                                                                             >  2:876209/1‑61 (MQ=255)
                                                                                     ttCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTgg                                             >  1:182753/1‑139 (MQ=255)
                                                                                       cGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAg                                                                                                                                <  1:805798/54‑1 (MQ=255)
                                                                                       cGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAg                                                                                                                                >  2:805798/1‑54 (MQ=255)
                                                                                       cGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGAt                                           >  1:1351621/1‑139 (MQ=255)
                                                                                         ccGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGAttt                                         <  1:1027089/139‑1 (MQ=255)
                                                                                                   ccgcTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGaa                               <  2:111012/139‑1 (MQ=255)
                                                                                                   ccgcTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGaa                               <  1:928786/139‑1 (MQ=255)
                                                                                                        aCGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATTGCTTGAAGAGcc                          <  1:1240794/139‑1 (MQ=255)
                                                                                                        aCGCAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGcc                          <  1:911337/139‑1 (MQ=255)
                                                                                                           cAA‑‑GTGGATGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTgg                       <  2:1351621/139‑1 (MQ=255)
                                                                                                                     tGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCt                         <  1:243737/129‑1 (MQ=255)
                                                                                                                     tGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCt                         >  2:243737/1‑129 (MQ=255)
                                                                                                                     tGGTACGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGtaataa               >  1:1320243/1‑139 (MQ=255)
                                                                                                                          cGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATTTTGATTCGGATTCACTCCACCCGCGTCCGGCGGTGGAGGGGATTTATCGCTTGAAGAGCCTGGTGGAATAACaaat          >  1:195460/1‑137 (MQ=255)
                                                                                                                          cGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGTTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAAtt          >  1:1045277/1‑139 (MQ=255)
                                                                                                                          cGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGtaataa               >  1:678584/1‑134 (MQ=255)
                                                                                                                          cGCAAATGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGtaataa               <  2:678584/134‑1 (MQ=255)
                                                                                                                               aTGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCg                                                                                                     <  2:891438/43‑1 (MQ=255)
                                                                                                                               aTGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCg                                                                                                     >  1:891438/1‑43 (MQ=255)
                                                                                                                               aTGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTACTAACAATTCCCGa     <  2:517055/139‑1 (MQ=255)
                                                                                                                               aTGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAATTCCCGa     <  1:316097/139‑1 (MQ=255)
                                                                                                                               aTGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAATTCCCGa     >  2:1169602/1‑139 (MQ=255)
                                                                                                                               aTGTCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAATTCCCGa     <  2:195460/139‑1 (MQ=255)
                                                                                                                                  tCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCg                                                                              <  1:1454837/63‑1 (MQ=255)
                                                                                                                                  tCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCg                                                                              >  2:1454837/1‑63 (MQ=255)
                                                                                                                                  tCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGAttt                                         >  2:835541/1‑100 (MQ=255)
                                                                                                                                  tCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGAttt                                         <  1:835541/100‑1 (MQ=255)
                                                                                                                                  tCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAATTCCCGa     <  2:311424/136‑1 (MQ=255)
                                                                                                                                  tCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAATTCCCGa     >  1:311424/1‑136 (MQ=255)
                                                                                                                                  tCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAATTCCCGATAg  >  1:185695/1‑139 (MQ=255)
                                                                                                                                  tCTTTGTTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAATTCCCGATAg  >  2:1320116/1‑139 (MQ=255)
                                                                                                                                        |                                                                                                                                    
ACGGCCTGGCGGTTGCAGCTCTGGCAGGCGTGCCAAAAGAGGTTATTAAGCGCGCACGGCAAAAGCTGCGTGAGCTGGAAAGCATTTCGCCGAACGCCGCCGCTACGCAA‑‑GTGGATGGTACGCAAATGTCTTTGCTGTCAGTACCAGAAGAAACTTCGCCTGCGGTCGAAGCTCTGGAAAATCTTGATCCGGATTCACTCACCCCGCGTCAGGCGCTGGAGTGGATTTATCGCTTGAAGAGCCTGGTGTAATAACAATTCCCGATAG  >  NC_000913/2859404‑2859670

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A