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
A6 F1 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,015,727 A→G 25.0% V114V (GTT→GTC)  fumA ← aerobic Class I fumarate hydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,015,7270AG25.0% 146.0 / 51.3 88V114V (GTT→GTC) fumAaerobic Class I fumarate hydratase
Reads supporting (aligned to +/- strand):  ref base A (37/29);  new base G (11/11);  total (48/40)
Fisher's exact test for biased strand distribution p-value = 6.31e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.70e-01

ATAGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGT  >  minE/1015661‑1015791
                                                                  |                                                                
ataGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACcaaca                                                               >  1:5127351/1‑70 (MQ=255)
 taGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACcaacaa                                                              >  1:3402511/1‑70 (MQ=255)
 taGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACcaacaa                                                              >  1:2528372/1‑70 (MQ=255)
 taGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACaat                                                             <  1:4727397/71‑1 (MQ=255)
   gACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACaataa                                                           >  1:3811583/1‑71 (MQ=255)
    acacCGCGCGCCAGCGCCGCTTCATCACCACCCCCGGTCCATACCCGCTGCCCTTTTTTACCAACaataat                                                          >  1:520643/1‑71 (MQ=255)
     cacCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATc                                                         <  1:3447993/71‑1 (MQ=255)
      acCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATcg                                                        <  1:2695996/71‑1 (MQ=255)
       ccGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATcgc                                                       >  1:3982361/1‑71 (MQ=255)
        cgcgcgCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATcg                                                        <  1:3658047/69‑1 (MQ=255)
         gcgcgcCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCgg                                                     >  1:232508/1‑71 (MQ=255)
                aGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCgg                                               >  1:1551041/1‑70 (MQ=255)
                  cgccgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTAt                                            >  1:4722473/1‑71 (MQ=255)
                   gccgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACaat                                                             >  1:1775721/1‑53 (MQ=255)
                   gccgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACaat                                                             >  1:5430502/1‑53 (MQ=255)
                   gccgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATc                                                         >  1:4629508/1‑57 (MQ=255)
                    ccgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATc                                           <  1:1063355/70‑1 (MQ=255)
                     cgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCt                                         <  1:3515801/71‑1 (MQ=255)
                     cgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCt                                         <  1:3896823/71‑1 (MQ=255)
                      tcTTCATCACCGCCGCCGGTCCACACGCGCTGGCCTTTTTTACcgac                                                                >  1:1429097/2‑47 (MQ=16)
                        ttCATCACCGCCGCCGGTCCACACGCGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTg                                        <  1:1524142/69‑1 (MQ=255)
                         tcatcaCCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCgg                                               <  1:237579/61‑1 (MQ=255)
                          catcaCCGCCGCCGGTCCACACGCGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTggc                                      <  1:2661484/69‑3 (MQ=255)
                          catcaCCGCCGCCGGTCCACACGCGCTGGCCTTTTTTACCGACGATGATCGAGGTGCCGGTATCCTgtc                                      <  1:2363479/69‑3 (MQ=255)
                           atcaCCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCgg                                                     >  1:2489002/1‑53 (MQ=255)
                           atcaCCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGa                                       >  1:5142457/1‑67 (MQ=255)
                           atcaCCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGa                                       >  1:3467340/1‑67 (MQ=255)
                           atcaCCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAgg                                   <  1:770359/71‑1 (MQ=255)
                            tcaCCGCCGCCGGTCCACACGCGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGt                                  <  1:243615/71‑1 (MQ=255)
                            tcaCCGCCGCCGGTCCACACGCGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGt                                  >  1:4035952/1‑71 (MQ=255)
                            tcaCCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGa                                       <  1:646429/66‑1 (MQ=255)
                              accaccaccGGTCCATACACGCTGCCCTTTTTTACCAACaataat                                                          >  1:4356031/1‑45 (MQ=255)
                              accaccaccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATcg                                                        >  1:1572158/1‑47 (MQ=255)
                               ccaccaccGGTCCATACACGCTGCCCTTTTTTACCAACaata                                                            <  1:431388/42‑1 (MQ=255)
                               ccaccaccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATc                                                         <  1:1340906/45‑1 (MQ=255)
                                  ccgccGGTCCACACGCGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAg                            <  1:2558444/68‑1 (MQ=255)
                                  ccaccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAg                            <  1:1060718/71‑1 (MQ=255)
                                   caccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGa                           <  1:3155127/71‑1 (MQ=255)
                                   caccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGa                           <  1:304152/71‑1 (MQ=255)
                                     ccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCgg                                               >  1:3911609/1‑49 (MQ=255)
                                     ccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGaa                          >  1:1963509/1‑70 (MQ=255)
                                       ggTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGaa                          >  1:3296863/1‑68 (MQ=255)
                                       ggTCCACACGCGCTGGCCTTTTTTACCGACGATGATcgc                                                       <  1:5383109/39‑1 (MQ=9)
                                        gTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCgg                                               <  1:5573713/46‑1 (MQ=255)
                                        gTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCgg                                               <  1:2627401/46‑1 (MQ=255)
                                        gTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGcc                      >  1:4816617/1‑71 (MQ=255)
                                        gTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGc                       <  1:37240/70‑1 (MQ=255)
                                         tCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCgg                                               <  1:4286053/45‑1 (MQ=255)
                                          ccATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTa                                             >  1:3679966/1‑46 (MQ=255)
                                          ccATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGa                                       >  1:3388531/1‑52 (MQ=255)
                                            aTACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAg                            <  1:1308118/61‑1 (MQ=255)
                                             tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGc                       <  1:3271662/65‑1 (MQ=255)
                                              acgcGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggc                >  1:3611482/4‑71 (MQ=255)
                                              acgcGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggc                >  1:2231729/4‑71 (MQ=255)
                                              acgcGCTGGCCGTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggc                >  1:5263149/4‑71 (MQ=255)
                                              acacGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGaa                          >  1:3667765/1‑61 (MQ=255)
                                               cacGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCg                                                >  1:3166586/1‑38 (MQ=255)
                                               cacGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgcc               >  1:5557374/1‑71 (MQ=255)
                                                gcGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCtttgg                 >  1:3773496/2‑66 (MQ=255)
                                                 cGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggcggc             <  1:4973483/71‑1 (MQ=255)
                                                 cGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgccgc             <  1:1316713/71‑1 (MQ=255)
                                                 cGCTGCCCTTTTTAACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgccgc             <  1:1075037/71‑1 (MQ=255)
                                                 cGCTGCCCTTTTTAACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgccgc             <  1:1974887/71‑1 (MQ=255)
                                                      gccTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggcggc             <  1:4051551/65‑1 (MQ=255)
                                                       ccTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTGGCGGCGATTTc       >  1:851234/1‑71 (MQ=255)
                                                       ccTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTc       <  1:2657598/71‑1 (MQ=255)
                                                        cTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt                     <  1:1546240/56‑1 (MQ=255)
                                                         ttttttACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggcggc             <  1:3290668/63‑1 (MQ=255)
                                                         ttttttACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggcggc             <  1:4500332/63‑1 (MQ=255)
                                                         ttttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgccgc             <  1:1661459/63‑1 (MQ=255)
                                                         ttttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgccgc             <  1:3174130/63‑1 (MQ=255)
                                                         ttttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGa           >  1:4324635/1‑65 (MQ=255)
                                                         ttttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCg      >  1:1028860/1‑70 (MQ=255)
                                                         ttttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCg      >  1:150716/1‑70 (MQ=255)
                                                         ttttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCg      >  1:2546137/1‑70 (MQ=255)
                                                          tttttACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggcggc             <  1:3672295/62‑1 (MQ=255)
                                                          tttttACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTGGCGGCGATTTCg      >  1:657737/1‑69 (MQ=255)
                                                          tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCttt                   >  1:5193701/1‑56 (MQ=255)
                                                          tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCttt                   >  1:5224497/1‑56 (MQ=255)
                                                          tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCttt                   >  1:5230059/1‑56 (MQ=255)
                                                          tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCg      >  1:4703573/1‑69 (MQ=255)
                                                          tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCg      >  1:2910695/1‑69 (MQ=255)
                                                          tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCg      >  1:4065337/1‑69 (MQ=255)
                                                           ttttACCGACGATGATCGCGGTGCCGGTATCCTGGCa                                     >  1:3142188/1‑37 (MQ=21)
                                                           ttttACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGt                                  >  1:1528893/1‑40 (MQ=25)
                                                           ttttACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGt                                  >  1:4556733/1‑40 (MQ=25)
                                                           ttttACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTGGCGGCGATTTCGGAg   >  1:5225673/1‑71 (MQ=255)
                                                           ttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGc                              >  1:1806926/1‑44 (MQ=255)
                                                            tttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGt  >  1:1643407/1‑71 (MQ=255)
                                                             ttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGt  <  1:2777173/70‑1 (MQ=255)
                                                               aCCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGa           >  1:5517858/1‑59 (MQ=255)
                                                               aCCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGa           >  1:3033088/1‑59 (MQ=255)
                                                                  |                                                                
ATAGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGT  >  minE/1015661‑1015791

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A