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 418,722 T→C 77.4% Y107Y (TAT→TAC)  ubiF → 2‑octaprenyl‑3‑methyl‑6‑methoxy‑1,4‑benzoquinol oxygenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE418,7220TC77.4% 107.2 / 23.1 79Y107Y (TAT→TAC) ubiF2‑octaprenyl‑3‑methyl‑6‑methoxy‑1,4‑benzoquinol oxygenase
Reads supporting (aligned to +/- strand):  ref base T (15/3);  new base C (48/13);  total (63/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGAAACGGCGCATGTGGTGTTTGACGCCGCTGAACTTAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGTAACGT  >  minE/418665‑418789
                                                         |                                                                   
ggaAACGGCGCATGTGGTGTTTGACGCCGCTGAACTTAAGCTACCGCTGCTTGGCTATATGGTGGaa                                                            <  1:2224920/67‑1 (MQ=255)
              tggtgTTTGACGCCGCTGAACTTAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAAc                                            >  1:2075051/1‑69 (MQ=255)
              tggtgTTTGACGCCGCTGAACTTAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAAc                                            >  1:239421/1‑69 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGTCTACATGGTGGAAAACACTGTCCTGc                                               >  1:568614/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTg                                                >  1:921047/1‑55 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:1941693/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:1862433/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:2072116/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:1830041/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:2080437/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:2084462/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:3204531/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:1527497/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:2162711/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:400487/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:413460/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:1266532/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:2480533/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:2491957/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:3065326/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:289665/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:261939/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:2849012/1‑56 (MQ=255)
                        cgccgcTGAACTTAAGCTACCGTTCCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:2074197/1‑56 (MQ=255)
                        cgccgcTGAACATAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGc                                               >  1:1236513/1‑56 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAATACTGTCCTGCAACAGGCGTTGTgg                                 <  1:2016405/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:315150/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:1977097/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:55740/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:3185109/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:2658795/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:1087594/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:1227870/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:3004078/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:16927/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:1589203/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACCGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:2138578/69‑1 (MQ=255)
                         gccgcTGAACTTAAGCTACAGTTGCTTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 <  1:1876936/69‑1 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:2964511/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:2932144/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:2680318/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:270340/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:1030255/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:860917/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:147002/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:1512646/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:208189/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:1695157/1‑69 (MQ=255)
                                    tAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGa                      >  1:1778698/1‑69 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAGCACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATc              >  1:1824217/2‑67 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCa                                              >  1:1943286/2‑35 (MQ=39)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:715622/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:3022443/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:869758/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2879089/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:3293326/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:287150/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:994882/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2597498/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:1501022/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:1861384/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:1400432/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2280682/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2448567/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:1329275/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2521160/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2582446/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2599052/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2599460/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2609656/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:1255079/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2745648/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:122101/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:2799453/2‑68 (MQ=255)
                                              ttgctTGGCTACATGGTGGAAAACACTGTCCTGCAACAAGCGTTGTGGCAGGCGCTGGAAGCGCATcc             >  1:1229502/2‑68 (MQ=255)
                                                   tGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTgg                                 >  1:2801983/1‑43 (MQ=255)
                                                   tGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGt       <  1:3102915/69‑1 (MQ=255)
                                                   tGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGt       >  1:579133/1‑69 (MQ=255)
                                                   tGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGt       <  1:2694521/69‑1 (MQ=255)
                                                       tataTGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGTAAc    >  1:2101104/1‑68 (MQ=255)
                                                       tataTGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGTAAc    >  1:2663682/1‑68 (MQ=255)
                                                       tataTGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGTAAc    >  1:2807991/1‑68 (MQ=255)
                                                       tataTGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGTAAc    >  1:1020574/1‑68 (MQ=255)
                                                        atatGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGTAACGt  <  1:1459570/69‑1 (MQ=255)
                                                        atatGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGTAACGt  <  1:1196538/69‑1 (MQ=255)
                                                         |                                                                   
GGAAACGGCGCATGTGGTGTTTGACGCCGCTGAACTTAAGCTACCGCTGCTTGGCTATATGGTGGAAAACACTGTCCTGCAACAGGCGTTGTGGCAGGCGCTGGAAGCGCATCCGAAAGTAACGT  >  minE/418665‑418789

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