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 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,912,718 C→T 26.3% T38T (ACG→ACA)  pyrI ← aspartate carbamoyltransferase, regulatory subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,912,7180CT26.3% 163.1 / 52.9 136T38T (ACG→ACA) pyrIaspartate carbamoyltransferase, regulatory subunit
Reads supporting (aligned to +/- strand):  ref base C (62/38);  new base T (26/10);  total (88/48)
Fisher's exact test for biased strand distribution p-value = 3.14e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.59e-01

Only 100 of 143 total aligned reads displayed.

TTTGATCAGATCTTTGCGGCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTCAATTACCG  >  minE/2912652‑2912785
                                                                  |                                                                   
tttGATCAGATCTTTGCGGCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGt                                                                   <  1:223007/69‑1 (MQ=255)
tttGATCAGATCTTTGCGGCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGt                                                                   <  1:225609/69‑1 (MQ=255)
tttGATCAGATCTTTGCGGCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGt                                                                   <  1:84812/69‑1 (MQ=255)
tttGATCAGATCTTTGCGGCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGt                                                                   <  1:2321423/69‑1 (MQ=255)
tttGATCAGATCTTTGCGGCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGt                                                                   <  1:728133/69‑1 (MQ=255)
              tGCGCCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTGa                                                     <  1:2774701/69‑1 (MQ=255)
              tGCGCCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTGa                                                     <  1:3227784/69‑1 (MQ=255)
              tGCGCCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTGa                                                     <  1:3261640/69‑1 (MQ=255)
              tGCGCCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTGa                                                     <  1:1573265/69‑1 (MQ=255)
              tGCGCCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTGa                                                     <  1:1454090/69‑1 (MQ=255)
              tGCGCCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTCGa                                                     <  1:2003003/69‑1 (MQ=255)
               gcgcCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTg                                                      >  1:419134/1‑67 (MQ=255)
               gcgcCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTg                                                      >  1:939461/1‑67 (MQ=255)
               gcgcCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTg                                                      >  1:1821480/1‑67 (MQ=255)
               gcgcCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTg                                                      >  1:174771/1‑67 (MQ=255)
               gcgcCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTg                                                      >  1:1263848/1‑67 (MQ=255)
               gcgcCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTg                                                      >  1:636946/1‑67 (MQ=255)
               gcgcCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTg                                                      >  1:3264821/1‑67 (MQ=255)
               gcgcCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCAACTTg                                                      >  1:1445808/1‑67 (MQ=255)
                   cccATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGa                                                <  1:6666/69‑1 (MQ=255)
                   cccATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGa                                                <  1:2718876/69‑1 (MQ=255)
                   cccATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGa                                                <  1:2677422/69‑1 (MQ=255)
                   cccATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGa                                                <  1:1167658/69‑1 (MQ=255)
                         tcGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAAc                                          >  1:1903414/1‑69 (MQ=255)
                               gAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCa                                                           >  1:771223/1‑46 (MQ=255)
                               gAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCa                                                           >  1:2944633/1‑46 (MQ=255)
                               gAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCa                                                           >  1:2809161/1‑46 (MQ=255)
                               gAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCa                                                           >  1:3344695/1‑46 (MQ=255)
                               gAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCa                                                           >  1:920911/1‑46 (MQ=255)
                               gAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCa                                                           >  1:2727509/1‑46 (MQ=255)
                               gAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCa                                                           >  1:1552446/1‑46 (MQ=255)
                               gAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCTGTTTCGGTCa                                                           >  1:1794066/1‑46 (MQ=255)
                                     aGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCg                              <  1:327097/69‑1 (MQ=255)
                                     aGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCg                              <  1:2144660/69‑1 (MQ=255)
                                     aGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCg                              <  1:1579988/69‑1 (MQ=255)
                                     aGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCg                              <  1:533997/69‑1 (MQ=255)
                                     aGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCg                              <  1:704642/69‑1 (MQ=255)
                                         tCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCt                          >  1:2123337/1‑69 (MQ=255)
                                         tCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCt                          >  1:2531420/1‑69 (MQ=255)
                                               cAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCg                     >  1:1965253/1‑68 (MQ=255)
                                                aaTGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCggg                   <  1:2291849/69‑1 (MQ=255)
                                                aaTGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCggg                   <  1:725191/69‑1 (MQ=255)
                                                  tGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGa                 <  1:344064/69‑1 (MQ=255)
                                                  tGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGa                 <  1:194469/69‑1 (MQ=255)
                                                   ggTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGat                <  1:3066752/69‑1 (MQ=255)
                                                   ggTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGat                <  1:2461027/69‑1 (MQ=255)
                                                   ggTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGat                <  1:1371109/69‑1 (MQ=255)
                                                   ggTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGat                <  1:2821531/69‑1 (MQ=255)
                                                   ggTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGat                <  1:3247455/69‑1 (MQ=255)
                                                   ggTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGa                 <  1:1724136/68‑1 (MQ=255)
                                                    gTGATGGGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:436783/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:527262/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  <  1:321063/50‑1 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:2917517/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:85736/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:1480116/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:3350121/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:1619716/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  <  1:2308952/50‑1 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:691038/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:703644/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:2273567/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  <  1:1687882/50‑1 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:741011/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:2363469/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:2624681/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:1139364/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  >  1:2514209/1‑50 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaa                                   >  1:642684/1‑49 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaa                                   >  1:3424880/1‑49 (MQ=255)
                                                    gTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTa                                    >  1:2886079/1‑48 (MQ=255)
                                                     tGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTaaa                                  <  1:794451/49‑1 (MQ=255)
                                                        tGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATgg            >  1:1474758/1‑68 (MQ=255)
                                                        tGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATgg            >  1:1613878/1‑68 (MQ=255)
                                                        tGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATgg            >  1:1297892/1‑68 (MQ=255)
                                                        tGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATgg            >  1:321344/1‑68 (MQ=255)
                                                        tGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATgg            >  1:2213044/1‑68 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:1021732/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:1033744/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:885455/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:2558283/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:789661/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:787531/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:1358834/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:3345209/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:2806056/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:1681765/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:691250/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:3076835/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:3186073/1‑69 (MQ=255)
                                                         gcgcTGATCCGTTTAGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTc          >  1:708630/1‑69 (MQ=255)
                                                          cgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGa                             >  1:1731656/1‑49 (MQ=255)
                                                          cgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGa                             >  1:2373617/1‑49 (MQ=255)
                                                          cgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGa                             >  1:1409137/1‑49 (MQ=255)
                                                          cgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGa                             >  1:873830/1‑49 (MQ=255)
                                                          cgcTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGa                             >  1:1099037/1‑49 (MQ=255)
                                                                 ccGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTCAAtt      <  1:2646812/65‑1 (MQ=255)
                                                                 ccGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTCAAtt      <  1:2848964/65‑1 (MQ=255)
                                                                 ccGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTCAAtt      <  1:3127111/65‑1 (MQ=255)
                                                                  cGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTCAATTACCg  >  1:2045226/1‑68 (MQ=255)
                                                                  |                                                                   
TTTGATCAGATCTTTGCGGCCCATCTCGCCAGAAGGCAGGTTCAGACCAATGGTGATGCGCTGATCCGTTTCGGTCAGCTTGAACAGACTCAACAGCTTAAAACCGATCTGGGCGGGGATATGGTCAATTACCG  >  minE/2912652‑2912785

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A