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 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 608,391 T→C 14.7% P621P (CCA→CCG)  pflB ← pyruvate formate lyase I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE608,3910TC14.7% 180.4 / 21.7 75P621P (CCA→CCG) pflBpyruvate formate lyase I
Reads supporting (aligned to +/- strand):  ref base T (44/20);  new base C (6/5);  total (50/25)
Fisher's exact test for biased strand distribution p-value = 4.90e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01

ACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGACTGAGTCGGGA  >  minE/608322‑608458
                                                                     |                                                                   
aCCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTg                                                                    <  1:1445341/71‑1 (MQ=255)
  cTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTggg                                                                  >  1:669612/1‑71 (MQ=255)
  cTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTggg                                                                  >  1:161795/1‑71 (MQ=255)
    ttCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgt                                                                >  1:1575891/1‑71 (MQ=255)
     tgcggTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCgt                                                                <  1:3566356/67‑1 (MQ=255)
     tCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGTCGCGCCAGCACGACGACCGTCTgggg                                                                 <  1:3913036/69‑1 (MQ=255)
     tCTGGTCACGACCGCGCATCGGCTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTgggg                                                                 <  1:3622849/69‑1 (MQ=255)
         gTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTa                                                            <  1:3237536/70‑1 (MQ=255)
         gTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTa                                                            <  1:319054/70‑1 (MQ=255)
         gTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTAc                                                           >  1:1344474/1‑71 (MQ=255)
         gTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTAc                                                           <  1:802030/71‑1 (MQ=255)
          tCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTa                                                            >  1:3712209/1‑69 (MQ=255)
            aCGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTAccgg                                                        >  1:2130713/1‑69 (MQ=255)
              gACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGtt                                                      >  1:2110747/1‑71 (MQ=255)
                  atGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCt                                                  <  1:2165478/70‑1 (MQ=255)
                   tGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCtt                                                 <  1:2506416/71‑1 (MQ=255)
                     cATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCtggc                                               <  1:536931/71‑4 (MQ=255)
                     cATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTAc                                               >  1:186636/1‑71 (MQ=255)
                      aTCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTa                                                >  1:1333899/1‑69 (MQ=255)
                       tCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgt                                                                >  1:1597242/1‑52 (MQ=255)
                       tCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCa                                             <  1:2027753/71‑1 (MQ=255)
                       tCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCa                                             <  1:1570096/71‑1 (MQ=255)
                        cGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCa                                             >  1:477167/1‑70 (MQ=255)
                        cGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCa                                             >  1:3414294/1‑70 (MQ=255)
                            ttAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTacac                                        >  1:1069453/1‑71 (MQ=255)
                            ttAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTAccc                                                         <  1:2251354/54‑1 (MQ=255)
                             tAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTggg                                                                  >  1:2723754/1‑44 (MQ=255)
                             tAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATacac                                        >  1:3024232/1‑70 (MQ=255)
                               gCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAAc                                     <  1:3354176/71‑1 (MQ=255)
                               gCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAAc                                     >  1:3832078/1‑71 (MQ=255)
                                  cccGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGtt                                  <  1:1391101/71‑1 (MQ=255)
                                  cccGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGt                                   >  1:2929608/1‑70 (MQ=255)
                                   ccGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTa                                                <  1:2315160/56‑1 (MQ=255)
                                   ccGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGt                                   >  1:3540482/1‑69 (MQ=255)
                                      gTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAAc                                     <  1:435448/64‑1 (MQ=255)
                                      gTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAg                                >  1:3297967/1‑69 (MQ=255)
                                       tCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACAATACACaa                                      >  1:2691225/1‑62 (MQ=255)
                                         cGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACAGGTTTTCTGGCCGTACACCACGTTAGAAGt                            <  1:1287419/70‑1 (MQ=255)
                                         cGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGt                            >  1:1936727/1‑70 (MQ=255)
                                          gAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGa                          >  1:3005560/1‑71 (MQ=255)
                                          gAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCa                                             <  1:303295/52‑1 (MQ=255)
                                          gAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGa                          <  1:2975766/71‑1 (MQ=255)
                                            aCGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATg                        >  1:1373502/1‑71 (MQ=255)
                                            aCGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATg                        >  1:2005067/1‑71 (MQ=255)
                                            aCGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATg                        >  1:2077016/1‑71 (MQ=255)
                                             cGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATg                        >  1:2907238/1‑70 (MQ=255)
                                              ggCGCGCCAGCACGACGACCGTCTGGGGTCTTACCCGTTTTCTTACCATacac                                        <  1:273582/53‑1 (MQ=255)
                                                cgcgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGt                      >  1:2267719/1‑69 (MQ=255)
                                                cgcgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGt                      >  1:3077494/1‑69 (MQ=255)
                                                 gcgcCAGCACGACGACCGTCTGGGGTGTTACCCGttt                                                     <  1:2517088/37‑1 (MQ=255)
                                                 gcgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCa                                             >  1:1721901/1‑45 (MQ=255)
                                                   gcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCa                                             >  1:1526192/1‑43 (MQ=255)
                                                   gcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGaa                 >  1:30672/1‑71 (MQ=255)
                                                   gcCAGCACGACGACCGTCTGGGGCGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGaa                 <  1:1787674/71‑1 (MQ=255)
                                                    ccAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAg                   <  1:3632670/68‑1 (MQ=255)
                                                      aGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGa                  >  1:1684856/1‑67 (MQ=255)
                                                       gCACGTCGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGa             >  1:1463806/1‑71 (MQ=255)
                                                       gCACGACGACCGTCTGGGGTGTTACCCGTTTTCtt                                                 >  1:3749690/1‑35 (MQ=255)
                                                       gCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGa             >  1:3029703/1‑71 (MQ=255)
                                                       gCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGa             >  1:554475/1‑71 (MQ=255)
                                                         gcgacgaCCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACt           >  1:318/2‑71 (MQ=255)
                                                         acgacgACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGaa                 >  1:1709023/1‑65 (MQ=255)
                                                         acgacgACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGACt           >  1:310005/1‑71 (MQ=255)
                                                           gacgacCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGACt           >  1:3646235/1‑69 (MQ=255)
                                                             cgacCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGACTGAGt       <  1:3425335/71‑1 (MQ=255)
                                                              gacCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTggg        >  1:948367/1‑67 (MQ=255)
                                                               acCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGACTGAGTCg     >  1:3583383/1‑71 (MQ=255)
                                                                ccGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGa                          >  1:3952751/1‑49 (MQ=255)
                                                                ccGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGa                          >  1:3139450/1‑49 (MQ=255)
                                                                ccGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGACTGAGTCgg    >  1:3254601/1‑71 (MQ=255)
                                                                ccGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGACTGAGTCgg    >  1:857464/1‑71 (MQ=255)
                                                                 cGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGaa                              >  1:693657/1‑44 (MQ=255)
                                                                 cGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAg                             >  1:1246570/1‑45 (MQ=255)
                                                                   tCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCa                    >  1:2094052/1‑52 (MQ=255)
                                                                   tCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGACTGAGTCGTGa  >  1:2063821/1‑70 (MQ=255)
                                                                     |                                                                   
ACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAACAGACTGAGTCGGGA  >  minE/608322‑608458

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A