Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 4,130,129 T→G 18.3% A231A (GCT→GCG)  mtrA → HTH‑type transcriptional regulator MtrA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24404,130,1290TG18.3% 117.1 / 2.6 56A231A (GCT→GCG) mtrAHTH‑type transcriptional regulator MtrA
Reads supporting (aligned to +/- strand):  ref base T (10/34);  new base G (10/2);  total (20/36)
Fisher's exact test for biased strand distribution p-value = 2.20e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGTTGAGCAGGTAGGCGCGCAGGTGGGGTATCA  >  KT2440/4129996‑4130263
                                                                                                                                     |                                                                                                                                      
aaTCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCtg                                                                                                                                       >  2:37476/1‑134 (MQ=255)
     cTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCtttttt                                                                                                                                   <  4:12771/134‑1 (MQ=255)
         gcgggcTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCaa                                                                                                                                <  3:217829/133‑1 (MQ=255)
         gcgggcTGGGCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCaa                                                                                                                                <  3:266726/133‑1 (MQ=255)
          cgggcTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGGGTTTTTCCAGCg                                                                                                                             >  2:182256/1‑135 (MQ=255)
          cgggcTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGAGTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGAACCGGGTTGTCACGGTCGGCGTTTTTGAAGCg                                                                                                                             >  5:153599/1‑135 (MQ=255)
                     ccctcgcccGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGGGTTTTTGAAGCGTTTGAgcgcgc                                                                                                                  >  2:188995/1‑135 (MQ=255)
                       ctcgcccGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTg                                                                                                                <  3:30974/135‑1 (MQ=255)
                          gcccgccAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGcc                                                                                                             <  4:313399/135‑1 (MQ=255)
                           cccgccAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGcc                                                                                                             <  4:313398/134‑1 (MQ=255)
                            ccgccAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCgg                                                                                                           <  5:304257/135‑1 (MQ=255)
                            ccgccAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCgg                                                                                                           <  2:182030/135‑1 (MQ=255)
                            ccgccAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCgg                                                                                                           <  5:339357/135‑1 (MQ=255)
                            ccgccAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCGTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCgg                                                                                                           <  6:3422/135‑1 (MQ=255)
                                 aGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATGCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGGCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGt                                                                                                      <  8:78792/135‑1 (MQ=255)
                                 aGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGt                                                                                                      <  3:285340/135‑1 (MQ=255)
                                     ggCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGTACCAGGGAGAACATGGCCGCTTGCACCGGGGTGTCACGGTCGGGGTTTTTCCTGGGGTTGCGCGAGCTAGCCGGGCAGTcccc                                                                                                  >  8:76677/1‑135 (MQ=255)
                                      gCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCg                                                                                                 <  4:150434/135‑1 (MQ=255)
                                            gCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACa                                                                                            <  7:43933/134‑1 (MQ=255)
                                                gATTGCTTGAGCAATTGATCGCGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTAAAGCGTTTAAGCGAGCTGGCCGGGCAGGCCCCGGGACAAGtgc                                                                                       >  8:333665/1‑135 (MQ=255)
                                                gATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGtgc                                                                                       <  4:6081/135‑1 (MQ=255)
                                                      ttGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGctgctg                                                                                  <  8:28924/134‑1 (MQ=255)
                                                      ttGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTgg                                                                                 <  1:15101/135‑1 (MQ=255)
                                                      ttGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTgg                                                                                 <  8:82752/135‑1 (MQ=255)
                                                        gAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTGAGCGCGCTGGCCGGGCAGTCACCGGGGCAAGTGCTTCTggag                                                                               >  4:158752/1‑133 (MQ=255)
                                                            aaTTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTgc                                                                           <  3:158459/135‑1 (MQ=255)
                                                                 aTCGAGCCTCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCAt                                                                       <  8:286706/134‑1 (MQ=255)
                                                                 aTCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCAt                                                                       <  5:224998/134‑1 (MQ=255)
                                                                  tCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGGTTGAGGGAGCTGGCCGGGCAGTCACCCGGACCACTGCTGCTGGCGCTGCGCCTgc                                                                     >  6:158999/1‑135 (MQ=255)
                                                                      gCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGGGTTTTTTAAGCGGTTAAGCGCGCCGGCCCGGCCGGCACCCGGCCAACTGCGGCGGGCGCGGGGCACgcgc                                                                   >  5:291136/1‑133 (MQ=255)
                                                                        aTCCGGGGCAAACCTGGACCATGGAGAACATGGCCACTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATg                                                               <  3:142915/135‑1 (MQ=255)
                                                                                  aaCCTGGACCATGGAGAACATGGCCGCTTGCACCGGGGTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGtt                                                     <  8:225611/135‑1 (MQ=255)
                                                                                   aCCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCACGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTtg                                                    <  1:318093/135‑1 (MQ=255)
                                                                                    ccTGGACCATGGAGAACATGGCCGCTTGCACCGTGTTGTCACGGTCGTCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTtgc                                                   <  8:69618/135‑1 (MQ=255)
                                                                                      tGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTtgctg                                                 <  4:68364/135‑1 (MQ=255)
                                                                                         aCCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCa                                               <  6:117197/134‑1 (MQ=255)
                                                                                             tGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCgg                                          <  1:188995/135‑1 (MQ=255)
                                                                                              ggAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCggg                                         <  6:264544/135‑1 (MQ=255)
                                                                                                agaACATGGCCGCTTGCACCGGGTTGTCACGGTCGGGGTTTTTTAAGCGTTTCAGCGCGCGGGGCGGGCGGGCACCGGGCCAAGTGCTGCTGGCGCTGCGCCTGCGCCCTGCCAGGCAGGTTCTGCCGGCGGGGc                                       >  5:89973/1‑135 (MQ=255)
                                                                                                agaACATGGCCGCTTGCACCGGGTTGTCACGGTCGGGGTTTTTCAAACGGTTGAGCCGGCTGGCCGGGCAGGGACCGGGACAACTGCTGCTGGCGCTGCGCCAGCGCCCTGCCAGCCCGTTGGGGCAGGCggggg                                       >  8:18921/1‑134 (MQ=255)
                                                                                                agaACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGc                                       >  3:238877/1‑135 (MQ=255)
                                                                                                agaACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGc                                       >  7:202926/1‑135 (MQ=255)
                                                                                                agaACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTGTTCAAGCCGGTGAGCCCGCTGGGCGGGCCGTGCCCTGGACAACTGCTGCTGGCGCGGCGCCTGCCCCAAGACAGCCCGGTAGTGCCGGGGGGGc                                       >  2:254233/1‑135 (MQ=255)
                                                                                                agaACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCGTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCggg                                         <  5:22835/133‑1 (MQ=255)
                                                                                                agaACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCGTTTTTAAAGCGTTTCAGCGCGCTGGCCGGGCAGTCACCGGGACAAGTGCAGCTGGCGCTGCGCAAGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGc                                       >  6:111870/1‑135 (MQ=255)
                                                                                                     aTGGCCGCTTGCACCGGGTTGTCACGGTCGGCGTTTTTCAAGCGGTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCCTGCCCGCCAGTTGCTGGCGGCGGGGCCTAcc                                  >  6:142976/1‑135 (MQ=255)
                                                                                                         ccGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGtt                               <  4:238877/134‑1 (MQ=255)
                                                                                                         ccGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGtt                               <  2:199517/134‑1 (MQ=255)
                                                                                                          cGCTTGCACCGGGTTGTCACGGTCGGGTTTTTTGAAGCGTTTCAGCGAGCTGGCCGGGGAGTCACCGGGACAAGTGCTGCTGGCGCGGCGCATGCGCCAAGCCCGCCAGTTGCTGCAGGCGGGGCATACCCTTGa                             >  6:65451/1‑135 (MQ=255)
                                                                                                             ttGCACCGGGTTGTCACGGTCGGGTTTTTTCAAGCGGTTCAGCGCGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCGGCGCCTGCGCCATGCCAGCCAGTTGGTGCAGGCGGGGGCTACCGTTGAGCa                          >  6:330564/1‑135 (MQ=255)
                                                                                                               gCACCGGGTTGTCACGGTCGGCTTTTTTTAAGCCGTTCAGCGAGCTGGCCGGGCAGTAACCGGGGCAAGTTCAGCTGGCGCAGCGCATGCGCCCTGCCCCCCCCTTGGTGCCGGCGGGGCATAACGGTGAGCAg                         >  8:316878/1‑134 (MQ=255)
                                                                                                                    gggTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGTTGAGCAGGTAGgc                   <  8:311544/135‑1 (MQ=255)
                                                                                                                    gggTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGTTGAGCAGGTAGgc                   <  4:314112/135‑1 (MQ=255)
                                                                                                                    gggTTGTCACGGTCGGCGTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGTTGAGCAGGTAGgc                   <  8:156192/135‑1 (MQ=255)
                                                                                                                        tGTCACGGTCGGCGTTTTTAAAGCGGTTCAGCGAGCTGGGCGGGCAGTCACCGGGACAAGTGCAGCATGCGCTGCGCAATCGCCATGCCAGCCAGATGCTGCACGCGGGGCCTACCGGTGATCAGGTAGgcgcgc               >  6:154733/1‑135 (MQ=255)
                                                                                                                          tCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGTTGAGCAGGTAGGCGCGCa              <  4:70760/134‑1 (MQ=255)
                                                                                                                          tCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGTTGAGCAGGTAGGCGCGCAg             >  1:230759/1‑135 (MQ=255)
                                                                                                                           cACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGTTGAGCAGGTAGGCGCGCAg             <  3:250385/134‑1 (MQ=255)
                                                                                                                                     ttttttCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGTTGAGCAGGTAGGCGCGCAGGTGGGGTATCa  <  5:65451/135‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                      
AATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGACCATGGAGAACATGGCCGCTTGCACCGGGTTGTCACGGTCGGCTTTTTTCAAGCGTTTCAGCGAGCTGGCCGGGCAGTCACCGGGACAAGTGCTGCTGGCGCTGCGCATGCGCCATGCCAGCCAGTTGCTGCAGGCGGGGCATACCGTTGAGCAGGTAGGCGCGCAGGTGGGGTATCA  >  KT2440/4129996‑4130263

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: ‑