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 1,714,688 A→G 28.3% P248P (CCT→CCC)  yphG ← conserved hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,714,6880AG28.3% 104.0 / 44.2 102P248P (CCT→CCC) yphGconserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (47/26);  new base G (18/11);  total (65/37)
Fisher's exact test for biased strand distribution p-value = 8.24e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01

Only 100 of 102 total aligned reads displayed.

TTCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC  >  minE/1714622‑1714750
                                                                  |                                                              
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:2732606/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:1739830/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:17197/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:472213/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:1657258/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:232960/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:549886/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:2000970/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:306699/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:1468153/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:1423208/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:1411147/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:61111/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:2855101/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:2471894/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:2502115/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:232225/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:21837/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:846893/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:1178637/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAgg                                                              >  1:923765/1‑69 (MQ=255)
ttCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAg                                                               >  1:2279018/1‑68 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:3023937/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:3085563/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:2869558/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:2329983/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:3336514/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:1810140/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:532447/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:532941/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:2448936/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:1272888/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtt                                                        >  1:2767456/1‑69 (MQ=255)
      gTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAt                                                         >  1:2857099/1‑68 (MQ=255)
        gACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGATGTTGGAACAGGCACAtttt                                                      <  1:240498/69‑1 (MQ=255)
        gACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtttt                                                      <  1:282101/69‑1 (MQ=255)
        gACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtttt                                                      <  1:2788344/69‑1 (MQ=255)
        gACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtttt                                                      <  1:2705814/69‑1 (MQ=255)
        gACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtttt                                                      <  1:1794236/69‑1 (MQ=255)
        gACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtttt                                                      <  1:1106139/69‑1 (MQ=255)
         acacCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACAtttt                                                      <  1:771276/68‑1 (MQ=255)
              acGCGCCAATAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:1977270/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:2880301/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:3329342/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:552673/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:566447/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:670013/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:733161/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:740873/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:817156/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:958759/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:1098904/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:1476131/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:1345578/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:2564416/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:1324285/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:1318878/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtata                                                  >  1:231189/1‑67 (MQ=255)
              acGCGCCAACAAAATCGTACTGTGATTTTTCAGCCATATATGAGGTTGGAACGGGCACATTTTtat                                                   >  1:1957994/1‑66 (MQ=255)
                  gcCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCgaga                                            <  1:1078737/69‑1 (MQ=255)
                  gcCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCgaga                                            <  1:1698581/69‑1 (MQ=255)
                  gcCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCgaga                                            <  1:1230460/69‑1 (MQ=255)
                  gcCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCgaga                                            <  1:1109304/69‑1 (MQ=255)
                     gACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCGAGaaa                                          <  1:345687/68‑1 (MQ=255)
                             cGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCAc                                   >  1:2863917/1‑67 (MQ=255)
                             cGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCAc                                   >  1:125187/1‑67 (MQ=255)
                             cGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCAc                                   >  1:678563/1‑67 (MQ=255)
                             cGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCAc                                   >  1:1384394/1‑67 (MQ=255)
                                           tcagCCATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:3042099/64‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:66426/63‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:920458/63‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:1581778/63‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:516420/63‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:2681415/63‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:1702667/63‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:2692363/63‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:1896394/63‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:2736864/63‑1 (MQ=255)
                                               ccATATATGAGGTTGGAACGGGCACATTTTTATAGCGAGAAATGTCCACTCCGGCGGagtagt                     <  1:2361693/63‑1 (MQ=255)
                                                    tatGAGGTTGGAAGAGGCACATTTTTATAGCGAGAAATGTCCa                                    >  1:3348468/1‑43 (MQ=255)
                                                    tatGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTcc                                     >  1:1963864/1‑42 (MQ=255)
                                                    tatGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCa                                    >  1:308375/1‑43 (MQ=255)
                                                    tatGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCa                                    >  1:2101059/1‑43 (MQ=255)
                                                    tatGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCa                                    >  1:3235097/1‑43 (MQ=255)
                                                    tatGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCa                                    <  1:3379119/43‑1 (MQ=255)
                                                    tatGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCa                                    >  1:538439/1‑43 (MQ=255)
                                                    tatGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCa                                    >  1:3245463/1‑43 (MQ=255)
                                                      tGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTgtagta        >  1:1518239/1‑69 (MQ=255)
                                                          gTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGt     <  1:1371564/68‑1 (MQ=255)
                                                          gTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGt     <  1:2096271/68‑1 (MQ=255)
                                                          gTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGt     <  1:2141621/68‑1 (MQ=255)
                                                          gTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGt     <  1:3236641/68‑1 (MQ=255)
                                                          gTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGt     <  1:24624/68‑1 (MQ=255)
                                                          gTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGt     <  1:26063/68‑1 (MQ=255)
                                                          gTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGt     <  1:3136364/68‑1 (MQ=255)
                                                          gTTGGAACAAGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGt     <  1:844816/68‑1 (MQ=255)
                                                            tGGAACAGGCACATTTTTATAGCGATAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGt     <  1:2594455/66‑1 (MQ=255)
                                                            tGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGcc  <  1:1628469/69‑1 (MQ=255)
                                                            tGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGcc  <  1:3366550/69‑1 (MQ=255)
                                                            tGGAACAGGCACATTTTTATAGCGAGAAACGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGcc  <  1:773672/69‑1 (MQ=255)
                                                                  |                                                              
TTCATCGTGACACCACGCGCCGACAAAATCGTACTGCGATTTTTCGGCCATATATGAGGTTGGAACAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC  >  minE/1714622‑1714750

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