Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 3,412,615 A→T 7.6% A179A (GCT→GCA)  lexA_2 ← LexA repressor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24403,412,6150AT 7.6% 149.9 / 4.6 53A179A (GCT→GCA) lexA_2LexA repressor
Reads supporting (aligned to +/- strand):  ref base A (25/24);  new base T (2/2);  total (27/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.69e-01

AGAGGGCCGTGGGTCGATGGGTTGATCACTCGGGGATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAATGATGCAGCCGGTAGGATAGCTTCT  >  KT2440/3412485‑3412740
                                                                                                                                  |                                                                                                                             
agagGGCCGTGGGTCGATGGGTTGATCACTCGGGGATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCa                                                                                                                            <  6:227144/134‑1 (MQ=255)
       cGTGGGTCGATGGGTTGATCACTCGGGGATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGaca                                                                                                                     >  3:37772/1‑134 (MQ=255)
          gggTCGATGGGTTGATCACTCGGGGATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAg                                                                                                                 >  7:93063/1‑135 (MQ=255)
          gggTCGATGGGTTGATCACTCGGGGATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAg                                                                                                                 >  3:153674/1‑135 (MQ=255)
                    gTTGATCACTCGGGGATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGaa                                                                                                        <  3:179494/134‑1 (MQ=255)
                         tCACTCGGGGATGAAGGAGCCCACGACCTTACCGCAGATGTGTGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCAcc                                                                                                 <  7:156517/136‑1 (MQ=255)
                           aCTCGGGGATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCAcc                                                                                                 >  2:217350/1‑134 (MQ=255)
                                gggATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGaa                                                                                                        >  6:145548/1‑122 (MQ=255)
                                gggATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGaa                                                                                                        <  5:145548/122‑1 (MQ=255)
                                  gATGAAGGAGCCCACGACCTTACCTCAGATGTGGGTCTCTTCAGTGATGTCTATGATTCGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTgg                                                                                          >  2:119699/1‑134 (MQ=255)
                                        ggAGCCCACGACCTTACCGAAGAGGTGGGGCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGt                                                                                  <  8:157347/136‑1 (MQ=255)
                                          aGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGATGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGt                                                                                         <  1:178008/127‑1 (MQ=255)
                                          aGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTAc                                                                                >  8:33052/1‑136 (MQ=255)
                                          aGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTCACACAAGCACCTTGAAGGTCACCTCATTGGt                                                                                         >  2:178008/1‑127 (MQ=255)
                                          aGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGAGTGGATACTGAGTATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTTTTGGTAc                                                                                >  8:277724/1‑136 (MQ=255)
                                              cACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCt                                                                             >  4:271010/1‑135 (MQ=255)
                                                       aCCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGac                                                                    <  8:93063/135‑1 (MQ=255)
                                                        ccGCTGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTTCCCTTGCTATGacac                                                                  <  8:136520/136‑1 (MQ=255)
                                                         cGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGacac                                                                  >  8:30460/1‑135 (MQ=255)
                                                          gCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGa                                                                >  7:234969/1‑136 (MQ=255)
                                                          gCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGa                                                                >  7:94932/1‑136 (MQ=255)
                                                           cAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGAt                                                               <  7:79244/136‑1 (MQ=255)
                                                            aGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGAt                                                               <  3:47231/135‑1 (MQ=255)
                                                                gtgGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCt                                                          >  8:69115/1‑136 (MQ=255)
                                                                 tgGGTCTCTTCCGTGATGTCTATGATTGTATACTGAGGATTTATGGGCCGAAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTAGACTTGCTATGACACTCTCACCt                                                          >  1:242709/1‑135 (MQ=255)
                                                                  gggTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTg                                                         <  2:271709/135‑1 (MQ=255)
                                                                         ttCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTg                                                   <  7:69115/134‑1 (MQ=255)
                                                                           ccGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCTGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGc                                                  >  4:263945/1‑133 (MQ=255)
                                                                           ccGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCTGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGc                                                  >  4:268532/1‑133 (MQ=255)
                                                                           ccGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCct                                                >  1:183105/1‑135 (MQ=255)
                                                                            cGTGATGTCTATGATTGGATACTGAGTATTTCTGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGc                                                  <  3:13407/132‑1 (MQ=255)
                                                                            cGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCTGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGcc                                                 <  3:263945/133‑1 (MQ=255)
                                                                            cGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCTGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGcc                                                 <  3:268532/133‑1 (MQ=255)
                                                                            cGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGcc                                                 <  3:99409/133‑1 (MQ=255)
                                                                                aTGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGAt                                                               >  4:159580/1‑115 (MQ=255)
                                                                                aTGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGAt                                                               <  3:159580/115‑1 (MQ=255)
                                                                                 tGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGt                                                                                         >  6:217406/1‑88 (MQ=255)
                                                                                 tGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGt                                                                                         <  5:217406/88‑1 (MQ=255)
                                                                                      aTGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGa                                     >  3:102180/1‑135 (MQ=255)
                                                                                        gATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATc                                   <  4:252643/135‑1 (MQ=255)
                                                                                                aCTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACaaaaa                           >  4:245594/1‑135 (MQ=255)
                                                                                                aCTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTAGATCCACaaaaa                           >  1:64581/1‑135 (MQ=255)
                                                                                                 cTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAatg                         <  7:142922/136‑1 (MQ=255)
                                                                                                  tGAGTAGTTATGGGCCGCAGGAATTGACTTCCATCATCTGACTCAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGGTATGACACTATCACATGTATTTGCCTCTACCTCTGGATCCACAAAAatg                         <  5:21857/135‑1 (MQ=255)
                                                                                                  tGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAatg                         >  3:192750/1‑135 (MQ=255)
                                                                                                     ggATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAatgat                       <  2:26652/134‑1 (MQ=255)
                                                                                                     ggATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAATGATGc                     <  8:234969/136‑1 (MQ=255)
                                                                                                      gATTTATGGGCCTCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAATGATGc                     <  1:119699/135‑1 (MQ=255)
                                                                                                       aTTTATGGGCCGCAGGAATTGACGACCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGAACACCTCTATTTGCCTCTACCTCTGGATCAACAAAAATGATGCa                    >  4:74950/1‑135 (MQ=255)
                                                                                                         ttATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAATGATGCAGcc                 >  7:31133/1‑136 (MQ=255)
                                                                                                               gCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAATGATGCAGCCGGTa             <  4:105946/134‑1 (MQ=255)
                                                                                                                  gCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAATGATGCAGCCGGTAGGa          >  7:276841/1‑134 (MQ=255)
                                                                                                                         ttGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAATGATGCAGCCGGTAGGATAGCTtct  <  4:209795/135‑1 (MQ=255)
                                                                                                                                  |                                                                                                                             
AGAGGGCCGTGGGTCGATGGGTTGATCACTCGGGGATGAAGGAGCCCACGACCTTACCGCAGATGTGGGTCTCTTCCGTGATGTCTATGATTGGATACTGAGGATTTATGGGCCGCAGGAATTGACGTCCAGCATCTGACACAAGCACCTTGAAGGTCACCTCATTGGTTCTTGGTACCCTTGCTATGACACGATCACCTGTATTTGCCTCTACCTCTGGATCCACAAAAATGATGCAGCCGGTAGGATAGCTTCT  >  KT2440/3412485‑3412740

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑