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 F142 I1 R1 99 64.8 3148104 96.3% 3031624 99.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,712,402 A→G S121S (AGT→AGC)  trmN ← tRNA1(Val) (adenine(37)‑N6)‑methyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,712,4020AG97.1% 239.2 / ‑1.9 69S121S (AGT→AGC) trmNtRNA1(Val) (adenine(37)‑N6)‑methyltransferase
Reads supporting (aligned to +/- strand):  ref base A (1/1);  new base G (38/29);  total (39/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01

AGGTCAGCAACGATGGGTGATCAAGCGTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTACTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACGGGGACTGGTT  >  NC_000913/2712305‑2712497
                                                                                                 |                                                                                               
aGGTCAGCAACGATGGGTGATCAAGCGTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCt                                                                                               <  2:1154849/100‑1 (MQ=255)
   tCAGCAACGATGGGTGATCAAGCGTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCtgat                                                                                            <  2:1348110/100‑1 (MQ=255)
      gCAACGATGGGTGATCAAGCGTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTgatgat                                                                                         <  2:1542631/100‑1 (MQ=255)
      gCAACGATGGGTGATCAAGCGTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTgatgat                                                                                         >  2:545524/1‑100 (MQ=255)
         aCGATGGGTGATCAAGCGTAGTGGTATAGCAAGACTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTaa                                                                                      >  2:1033311/1‑100 (MQ=255)
          cGATGGGTGATCAAGCGTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTaaa                                                                                     >  2:591321/1‑100 (MQ=255)
                       aGCGTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAACTCGAAGAGTCCTg                                                                        >  1:1074565/1‑100 (MQ=255)
                       aGCGTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTg                                                                        <  2:895594/100‑1 (MQ=255)
                          gTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTc                                                                      <  2:770519/99‑1 (MQ=255)
                             gTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTctgct                                                                  >  1:483079/1‑100 (MQ=255)
                              tGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTctgctg                                                                 <  1:117494/100‑1 (MQ=255)
                              tGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTctgctg                                                                 <  2:170875/100‑1 (MQ=255)
                              tGGTATAGCGAGCCTGTCCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTctgctg                                                                 <  2:1113589/100‑1 (MQ=255)
                               ggTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCtgt                                                                >  2:537919/1‑100 (MQ=255)
                               ggTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCtgt                                                                >  2:412093/1‑100 (MQ=255)
                               ggTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCtgt                                                                >  2:351068/1‑100 (MQ=255)
                                gTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTACTGATGATTAAATCGAAGCGTACTGTCTGCtgtg                                                               <  1:761552/100‑1 (MQ=255)
                                 tataGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCtgtgt                                                              <  2:1421235/100‑1 (MQ=255)
                                 tataGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTAATGTCTGCtgtgt                                                              <  1:1033318/100‑1 (MQ=255)
                                  ataGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCtgtgtg                                                             <  2:1398948/100‑1 (MQ=255)
                                  ataGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCtgtgtg                                                             >  2:1549076/1‑100 (MQ=255)
                                  ataGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCtgtgtg                                                             >  1:148721/1‑100 (MQ=255)
                                   taGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGa                                                            <  1:24691/100‑1 (MQ=255)
                                     gCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATc                                                          >  2:726446/1‑100 (MQ=255)
                                      cGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATcc                                                         >  2:1242911/1‑100 (MQ=255)
                                       gAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCa                                                        >  2:714946/1‑100 (MQ=255)
                                          ccggtgcgcGTTGAGGGGTCGAGCAACCTGCTCCCTGCGGACAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCAct                                                      <  2:161752/91‑1 (MQ=255)
                                            tGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCActgct                                                   >  1:128730/1‑100 (MQ=255)
                                             gTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCActgctg                                                  >  2:52768/1‑100 (MQ=255)
                                             gTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCActgctg                                                  >  2:984064/1‑100 (MQ=255)
                                             gTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCActgctg                                                  <  1:1430143/100‑1 (MQ=255)
                                             gTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCActgctg                                                  >  1:666947/1‑100 (MQ=255)
                                              ttCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGa                                                 >  1:1119596/1‑100 (MQ=255)
                                              ttCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGa                                                 >  2:432665/1‑100 (MQ=255)
                                                cccGTTGAGGTGTCGAGCACTCTGCTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAat                                               <  1:545527/100‑1 (MQ=255)
                                                cccGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAat                                               <  1:261925/100‑1 (MQ=255)
                                                   gTTGAGGTGTCGAGCACTCTCGTCCGTGCTGATCGTAGGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACGCCTTAatat                                             <  2:1074558/99‑1 (MQ=255)
                                                     tGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATccg                                          <  2:1571180/100‑1 (MQ=255)
                                                        ggTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGGATATccgccg                                       >  2:1030879/1‑100 (MQ=255)
                                                        ggTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATccgccg                                       <  2:128730/100‑1 (MQ=255)
                                                         gtgtCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGt                                      <  1:705988/100‑1 (MQ=255)
                                                          tgtCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTa                                     >  1:819338/1‑100 (MQ=255)
                                                          tgtCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTa                                     <  2:1336133/100‑1 (MQ=255)
                                                           gtCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTAt                                    >  2:1059118/1‑100 (MQ=255)
                                                             cGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATgg                                  >  2:1209883/1‑100 (MQ=255)
                                                                gCACTCTACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACg                               <  2:184534/100‑1 (MQ=255)
                                                                   ctctACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTa                            >  1:770869/1‑100 (MQ=255)
                                                                   ctatACTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATAGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGTACGTTa                            >  1:379287/4‑100 (MQ=255)
                                                                       aCTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATcc                        <  1:612897/100‑1 (MQ=255)
                                                                       aCTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATcc                        >  2:773219/1‑100 (MQ=255)
                                                                       aCTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATcc                        <  1:1504732/100‑1 (MQ=255)
                                                                       aCTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATcc                        <  1:612921/100‑1 (MQ=255)
                                                                        cTCCCTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCg                       >  2:1510210/1‑100 (MQ=255)
                                                                          cccTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGct                     >  1:756868/1‑100 (MQ=255)
                                                                          cccTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGct                     <  1:1549086/100‑1 (MQ=255)
                                                                          cccTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGct                     >  2:359846/1‑100 (MQ=255)
                                                                          cccTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGct                     <  1:48650/100‑1 (MQ=255)
                                                                          cccTGCTGATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGCCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGc                      >  2:762539/1‑99 (MQ=255)
                                                                              gctgATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGc                 <  2:1559494/100‑1 (MQ=255)
                                                                                 gATAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCa              >  2:1457343/1‑100 (MQ=255)
                                                                                   tAGTAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCa              >  2:909934/1‑98 (MQ=255)
                                                                                      tAAGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACgggg         >  1:130698/1‑100 (MQ=255)
                                                                                        aGGTGGGTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACGGGGAc       >  1:508120/1‑100 (MQ=255)
                                                                                        aGGTGGGTTGCTGATGATTAAATCGAAGAGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACggg          >  2:935943/1‑97 (MQ=255)
                                                                                        aGGTGGGTTACTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACGGGGAc       >  1:229479/1‑100 (MQ=255)
                                                                                            gggTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACGGGGACTGGt   >  1:218597/1‑100 (MQ=255)
                                                                                            gggTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACGGGGACTGGt   >  2:87677/1‑100 (MQ=255)
                                                                                             ggTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACGGGGACTGGtt  >  1:165023/1‑100 (MQ=255)
                                                                                             ggTTGCTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACGGGGACTGGtt  <  2:756864/100‑1 (MQ=255)
                                                                                                 |                                                                                               
AGGTCAGCAACGATGGGTGATCAAGCGTAGTGGTATAGCGAGCCTGTTCCCGTTGAGGTGTCGAGCACTCTACTCCCTGCTGATAGTAAGGTGGGTTACTGATGATTAAATCGAAGCGTACTGTCTGCTGTGTGATCCACTGCTGAATATCCGCCGTATGGACGTTAATCCGCTCTGCCCACGGGGACTGGTT  >  NC_000913/2712305‑2712497

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A