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 719,284 G→T 53.9% P206P (CCG→CCT)  mviN → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE719,2840GT53.9% ‑0.3 / 88.3 76P206P (CCG→CCT) mviNpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base G (29/6);  new base T (30/11);  total (59/17)
Fisher's exact test for biased strand distribution p-value = 4.11e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01

CACCGGTGCTGGCGCTGGCGTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCA  >  minE/719217‑719344
                                                                   |                                                            
cACCGGTGCTGGCGCTGGCGTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGc                                                             >  1:1980012/1‑69 (MQ=255)
cACCGGTGCTGGCGCTGGCGTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGc                                                             >  1:192958/1‑69 (MQ=255)
cACCGGTGCTGGCGCTGGCGTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGc                                                             >  1:3036305/1‑69 (MQ=255)
          ggcgctggcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTga                                                       >  1:2528804/1‑65 (MQ=255)
          ggcgctggcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTga                                                       >  1:118279/1‑65 (MQ=255)
          ggcgctggcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTga                                                       >  1:2872099/1‑65 (MQ=255)
          ggcgctggcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTga                                                       >  1:3432219/1‑65 (MQ=255)
          ggcgctggcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTga                                                       >  1:1397301/1‑65 (MQ=255)
          ggcgctggcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTga                                                       >  1:3096314/1‑65 (MQ=255)
                ggcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTGAAGAAGATCgg                                             <  1:851874/69‑1 (MQ=255)
                ggcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTGAAGAAGATCgg                                             <  1:2535090/69‑1 (MQ=255)
                ggcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTGAAGAAGATCgg                                             <  1:832870/69‑1 (MQ=255)
                ggcgTGGGCTGTTACGGGCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTGAAGAAGATCgg                                             <  1:2675323/69‑1 (MQ=255)
                 gcgTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTGAAGAAGATCgg                                             <  1:2177459/68‑1 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCgg                                             >  1:1524893/1‑59 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATggtggt                                    >  1:2508376/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGtt                                   >  1:1255876/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGtt                                   >  1:101683/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGtt                                   >  1:2594761/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGtt                                   >  1:2688805/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGtt                                   >  1:3116902/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGtt                                   >  1:465756/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGtt                                   >  1:1416243/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGtt                                   >  1:1602219/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGt                                    >  1:2760667/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGt                                    >  1:69782/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGt                                    >  1:762400/1‑68 (MQ=255)
                          gTTACGGTCGGCGGCATCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGt                                    >  1:833012/1‑68 (MQ=255)
                                      ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:519117/69‑1 (MQ=255)
                                      ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:305441/69‑1 (MQ=255)
                                      ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:3058580/69‑1 (MQ=255)
                                      ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:1007321/69‑1 (MQ=255)
                                      ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:1662171/69‑1 (MQ=255)
                                      ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:1215704/69‑1 (MQ=255)
                                      ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:2497761/69‑1 (MQ=255)
                                      ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:1809062/69‑1 (MQ=255)
                                       gcatCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:1179744/65‑1 (MQ=255)
                                       gcatCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:1664387/65‑1 (MQ=255)
                                       gcatCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt                       <  1:180919/65‑1 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:1339772/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:1437206/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:3266404/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:3336319/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:3341224/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:3271658/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:1284906/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:676065/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:744967/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:1078713/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:977630/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:2527898/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:2451184/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:2930962/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:2878638/1‑69 (MQ=255)
                                             tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc                >  1:2840630/1‑69 (MQ=255)
                                                          tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGGGc   >  1:3311242/1‑69 (MQ=255)
                                                          tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc   >  1:3189214/1‑69 (MQ=255)
                                                          tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc   <  1:1001672/69‑1 (MQ=255)
                                                          tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc   >  1:2989108/1‑69 (MQ=255)
                                                          tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc   >  1:423474/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGa     >  1:779448/1‑66 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc   >  1:530596/1‑68 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:2138271/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:2553812/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:229805/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:1133267/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:2045926/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:1111927/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:3335340/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:1609355/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:89494/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:939048/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:948896/1‑69 (MQ=255)
                                                           cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa  >  1:3179112/1‑69 (MQ=255)
                                                                aCCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTc                 >  1:1445595/1‑49 (MQ=255)
                                                                aCCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTc                 >  1:2161743/1‑49 (MQ=255)
                                                                   |                                                            
CACCGGTGCTGGCGCTGGCGTGGGCTGTTACGGTCGGCGGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCA  >  minE/719217‑719344

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