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 2,481,036 T→C 37.1% G226G (GGA→GGG)  yidZ ← predicted DNA‑binding transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,481,0360TC37.1% 60.4 / 67.2 105G226G (GGA→GGG) yidZpredicted DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (49/17);  new base C (27/12);  total (76/29)
Fisher's exact test for biased strand distribution p-value = 6.53e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.26e-01

Only 100 of 105 total aligned reads displayed.

GCGCTGCCATAAACAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGATA  >  minE/2480975‑2481099
                                                             |                                                               
gcgcTGCCATAAACAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCt                                                          >  1:1905770/1‑69 (MQ=255)
gcgcTGCCATAAACAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCt                                                          >  1:78768/1‑69 (MQ=255)
gcgcTGCCATAAACAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCt                                                          >  1:410789/1‑69 (MQ=255)
           aaCAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAacac                                                >  1:2587837/1‑68 (MQ=255)
           aaCAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               >  1:1747483/1‑69 (MQ=255)
           aaCAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               >  1:1071428/1‑69 (MQ=255)
           aaCAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               >  1:3091580/1‑69 (MQ=255)
           aaCAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               >  1:2757469/1‑69 (MQ=255)
            aCAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAg                                                            >  1:1815620/1‑55 (MQ=255)
            aCAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACAt                                              >  1:1036701/1‑69 (MQ=255)
            aCAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACAt                                              >  1:1957517/1‑69 (MQ=255)
            aCAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACAt                                              >  1:2114144/1‑69 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAGACATTg                                            >  1:1595984/1‑67 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTg                                            >  1:2647353/1‑67 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTg                                            >  1:2912005/1‑67 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTg                                            >  1:3405807/1‑67 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTg                                            >  1:1925574/1‑67 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTg                                            >  1:3168631/1‑67 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTg                                            >  1:3341007/1‑67 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTg                                            >  1:3238652/1‑67 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTg                                            >  1:812782/1‑67 (MQ=255)
                tGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGAGTCCCAGCTCCTGTAaca                                                 >  1:792660/1‑62 (MQ=255)
                 gACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTcc                                         >  1:248867/1‑69 (MQ=255)
                    tGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTcc                                                               >  1:271591/1‑44 (MQ=255)
                    tGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAgc                                      >  1:2763031/1‑69 (MQ=255)
                    tGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAgc                                      >  1:1213096/1‑69 (MQ=255)
                    tGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAgc                                      >  1:2888395/1‑69 (MQ=255)
                     gCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAgcg                                     >  1:184976/1‑69 (MQ=255)
                     gCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAgcg                                     >  1:2687096/1‑69 (MQ=255)
                     gCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAgcg                                     >  1:3059090/1‑69 (MQ=255)
                     gCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAgcg                                     >  1:259789/1‑69 (MQ=255)
                     gCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAgcg                                     >  1:418536/1‑69 (MQ=255)
                              ccGGCAGGCTCATAGCAATCGTGCGTTCGCGCCCCAGCTCCt                                                       >  1:2102574/1‑42 (MQ=255)
                              ccGGCAGGCTCATAGCAATCGTGCGTTCGCGCCCCAGCTCCt                                                       >  1:1241895/1‑42 (MQ=255)
                              ccGGCAGGCTCATAGCAATCGTGCGTTCGCGCCCCAGCTCCt                                                       >  1:428200/1‑42 (MQ=255)
                              ccGGCAGGCTCATAGCAATCGTGCGTTCGCGCCCCAGCTCCt                                                       >  1:3131427/1‑42 (MQ=255)
                              ccGGCAGGCTCATAGCAATCGTGCGTTCGCGCCCCAGCTCCt                                                       >  1:1529292/1‑42 (MQ=255)
                              ccGGCAGGCTCATAGCAATCGTGCGTTCGCGCCCCAGCTCCt                                                       >  1:3386055/1‑42 (MQ=255)
                              ccGGCAGGCTCATAGCAATCGTGCGTTCGCGCCCCAGCTCCt                                                       >  1:1486580/1‑42 (MQ=255)
                              ccGGCAGGCTCATAGCAATCGTGCGTTCCCGCCCCAGCTCCt                                                       >  1:3043383/1‑42 (MQ=38)
                                    ggCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGctct                      <  1:205566/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               <  1:2503219/41‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               <  1:500862/41‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               <  1:2975064/41‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               <  1:2831456/41‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               <  1:1883560/41‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               <  1:1606258/41‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               <  1:114333/41‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAAcaca                                               <  1:2895314/41‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:1181195/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:402854/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:2809279/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:1000476/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:3120369/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:2646229/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:1627600/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:1445625/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:1802260/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:751727/69‑1 (MQ=255)
                                       tCATAGCAATCGTGCGTTCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGtt                   <  1:1065188/69‑1 (MQ=255)
                                            gCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCa               >  1:1936012/1‑68 (MQ=255)
                                            gCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCa               >  1:2044415/1‑68 (MQ=255)
                                              aaTCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCa            <  1:1979521/69‑1 (MQ=255)
                                              aaTCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCa            <  1:2797262/69‑1 (MQ=255)
                                              aaTCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCa            <  1:2106911/69‑1 (MQ=255)
                                              aaTCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCa            <  1:1904304/69‑1 (MQ=255)
                                              aaTCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCa            <  1:2814532/69‑1 (MQ=255)
                                              aaTCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGAGCCCAGGTATCGCTCTGTTCCCAGCa            <  1:876743/69‑1 (MQ=255)
                                               aTCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCaa           >  1:584880/1‑69 (MQ=255)
                                                 cGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCaaa          <  1:600852/68‑1 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAGCACATTGTCCAGGGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:3424812/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:879228/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:598310/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:675529/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:3204362/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:317311/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:1765640/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:2997425/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:1928806/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:3215960/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:2346092/1‑69 (MQ=255)
                                                  gTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATg        >  1:2509491/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTTTCGCTCTGTTCCCAGCAAATGCTGat   >  1:3327635/1‑68 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATTGCTCTGTTCCCAGCAAATGCTGata  >  1:561697/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:2516425/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:2713420/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:2820808/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:343263/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:584367/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:197331/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:2824449/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:614418/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:3007384/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:1476039/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:1390745/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:1386899/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:1160511/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGata  >  1:1094945/1‑69 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGat   >  1:1770376/1‑68 (MQ=255)
                                                        tCGCGCCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGat   >  1:1592201/1‑68 (MQ=255)
                                                             |                                                               
GCGCTGCCATAAACAGTGACTGCTCGAATTCCGGCAGGCTCATAGCAATCGTGCGTTCGCGTCCCAGCTCCTGTAACACATTGTCCAGCGCCCAGGTATCGCTCTGTTCCCAGCAAATGCTGATA  >  minE/2480975‑2481099

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