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 668,000 G→T 45.3% R446R (CGG→CGT)  uup → fused predicted transporter subunits and ATP‑binding components of ABC superfamily

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE668,0000GT45.3% 45.7 / 120.1 117R446R (CGG→CGT) uupfused predicted transporter subunits and ATP‑binding components of ABC superfamily
Reads supporting (aligned to +/- strand):  ref base G (51/13);  new base T (38/15);  total (89/28)
Fisher's exact test for biased strand distribution p-value = 3.85e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

Only 100 of 117 total aligned reads displayed.

TGCAGGACTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCG  >  minE/667933‑668063
                                                                   |                                                               
tGCAGGACTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGa                                                                >  1:1793046/1‑69 (MQ=255)
      aCTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCt                                                          >  1:1786705/1‑69 (MQ=255)
      aCTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCt                                                          >  1:2367585/1‑69 (MQ=255)
      aCTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCt                                                          >  1:1888238/1‑69 (MQ=255)
      aCTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCt                                                          >  1:2781997/1‑69 (MQ=255)
      aCTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCt                                                          >  1:2820829/1‑69 (MQ=255)
      aCTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCt                                                          >  1:2917518/1‑69 (MQ=255)
       cTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCtt                                                         >  1:344402/1‑69 (MQ=255)
       cTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCtt                                                         >  1:743090/1‑69 (MQ=255)
       cTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCtt                                                         >  1:1733344/1‑69 (MQ=255)
       cTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCtt                                                         >  1:2782550/1‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCtt                                                         >  1:3237304/4‑68 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:3030623/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:3061074/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:2474632/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:3333470/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:2023033/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:2647636/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:1794794/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:1332244/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:2858303/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:2785749/4‑69 (MQ=255)
        ttccTGTTCCATCCAAAACGGGCGATGACACCGGTACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTtg                                                        >  1:3149658/4‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:908714/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:942505/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:2901904/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:3374292/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:596916/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:2068619/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:2011128/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:1640776/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:2779448/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:1905899/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:1076759/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:1884976/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:946440/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:809668/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:3228885/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGtt                                           >  1:3111976/1‑69 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGt                                            >  1:2633666/1‑68 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGt                                            >  1:1069390/1‑68 (MQ=255)
                     cGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGt                                            >  1:736808/1‑68 (MQ=255)
                       aaaCGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTg                                         <  1:1668388/69‑1 (MQ=255)
                       aaaCGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTg                                         <  1:398195/69‑1 (MQ=255)
                       aaaCGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTg                                         <  1:1383038/69‑1 (MQ=255)
                       aaaCGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTg                                         <  1:1979783/69‑1 (MQ=255)
                       aaaCGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTg                                         <  1:2268074/69‑1 (MQ=255)
                         aCGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTg                                         <  1:833772/67‑1 (MQ=255)
                                  gACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCaaa                                >  1:91413/1‑67 (MQ=255)
                                   aCGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCa                             >  1:1304048/1‑69 (MQ=255)
                                   aCGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCa                             >  1:532525/1‑69 (MQ=255)
                                        ggTACGTGCGCTTTCTTGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCaa                        <  1:2746629/69‑1 (MQ=255)
                                        ggTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCaa                        <  1:58814/69‑1 (MQ=255)
                                        ggTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCaa                        <  1:396413/69‑1 (MQ=255)
                                        ggTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCaa                        <  1:1810360/69‑1 (MQ=255)
                                        ggTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCaa                        <  1:1770488/69‑1 (MQ=255)
                                        ggTACGTGCGCTTTCTGGCGGTGAGAGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCaa                        <  1:2975916/69‑1 (MQ=255)
                                          tACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:3134252/69‑1 (MQ=255)
                                          tACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:3030787/69‑1 (MQ=255)
                                          tACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:1779894/69‑1 (MQ=255)
                                          tACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:1569890/69‑1 (MQ=255)
                                          tACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:60811/69‑1 (MQ=255)
                                          tACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:2667695/69‑1 (MQ=255)
                                          tACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:215323/69‑1 (MQ=255)
                                          tACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:2562558/69‑1 (MQ=255)
                                          tACGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:2477488/69‑1 (MQ=255)
                                           aCGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:2907302/68‑1 (MQ=255)
                                           aCGTGCGCTTTCTGGCGGTGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCAACt                      <  1:2090449/68‑1 (MQ=255)
                                           aCGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACtg                     >  1:1127809/1‑68 (MQ=255)
                                              tGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGttt                                          >  1:1125115/1‑45 (MQ=255)
                                              tGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTAtt                  >  1:968946/1‑69 (MQ=255)
                                              tGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTAtt                  >  1:279897/1‑69 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGGGCGTTTGTTCCTCAAagcaagca                         >  1:2300490/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCaa                            >  1:2834314/1‑44 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:3127787/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:1145694/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:1345140/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:1347452/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:1609611/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:1661749/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:78699/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:762362/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:1920898/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:643336/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:1941652/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:2220270/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:2566182/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:2632846/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:3322267/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:2675202/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:2911466/1‑47 (MQ=255)
                                                             tGAGCGTAACCGCTTGTTGTTGGCGCGTTTGTTCCTCAAACCAAGCa                         >  1:3009901/1‑47 (MQ=255)
                                                               aGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCg  >  1:2336/1‑68 (MQ=255)
                                                               aGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCg  >  1:517180/1‑68 (MQ=255)
                                                               aGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCg  >  1:2363265/1‑68 (MQ=255)
                                                               aGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCg  >  1:2496825/1‑68 (MQ=255)
                                                               aGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCg  >  1:1865120/1‑68 (MQ=255)
                                                               aGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCg  >  1:2500842/1‑68 (MQ=255)
                                                               aGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCg  >  1:1647923/1‑68 (MQ=255)
                                                               aGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCg  >  1:1073460/1‑68 (MQ=255)
                                                                   |                                                               
TGCAGGACTTTCTGTTCCATCCGAAACGGGCGATGACGCCGGTACGTGCGCTTTCTGGCGGTGAGCGGAACCGCTTGCTGCTGGCGCGTTTGTTCCTCAAACCAAGCAACTTATTGATTCTTGACGAACCG  >  minE/667933‑668063

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