Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 3,096,515 G→A 7.5% L215L (CTG→CTA)  qseB_2 → Transcriptional regulatory protein QseB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24403,096,5150GA 7.5% 164.0 / 3.7 53L215L (CTG→CTA) qseB_2Transcriptional regulatory protein QseB
Reads supporting (aligned to +/- strand):  ref base G (20/29);  new base A (2/2);  total (22/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.60e-01

GTGAGCGCCTGACTCAACTGCTGTATGGCTGGGATGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTCGCGCTCTATAACTACCACGACAGCAGCCACGAAATTAACGAGGT  >  KT2440/3096382‑3096642
                                                                                                                                     |                                                                                                                               
gTGAGCGCCTGACTCAACTGCTGTATGGCTGGGATGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTgg                                                                                                                                <  3:30255/135‑1 (MQ=255)
    gcgcCTGACTCAACTGCTGTATGGCTGGGATGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAg                                                                                                                           <  7:37075/136‑1 (MQ=255)
    gcgcCTGACTCAACTGCTGTATGGCTGGGATGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTAGCGCAAGAAGCTGTACAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGa                                                                                                                            >  6:188580/1‑135 (MQ=255)
                aCTGCTGTATGGCTGGGATGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCAt                                                                                                                 <  1:160010/134‑1 (MQ=255)
                          ggCTGGGATGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCtt                                                                                                       <  3:89285/134‑1 (MQ=255)
                          ggCTGGGATGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTc                                                                                                      >  3:62334/1‑135 (MQ=255)
                          ggCTGGGATGAAGAGACGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGAGCAAGAAGCTGTTCAACGGCATGATTCGCACGGTGCGAGGAATAGGCTATCTGGTCGAGGTCAAGGCATGACATCGCTTc                                                                                                      >  6:16323/1‑135 (MQ=255)
                               ggATGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAgc                                                                                                >  8:18789/1‑136 (MQ=255)
                                 aTGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAgc                                                                                                >  6:120150/1‑134 (MQ=255)
                                  tGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAgcgc                                                                                              >  1:65637/1‑135 (MQ=255)
                                  tGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAgcgc                                                                                              >  2:14766/1‑135 (MQ=255)
                                  tGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAgcgc                                                                                              >  6:144785/1‑135 (MQ=255)
                                    aaGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCAc                                                                                            >  1:199375/1‑135 (MQ=255)
                                       agCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCt                                                                                         <  6:20800/135‑1 (MQ=255)
                                         ccGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCtgt                                                                                       <  1:45106/135‑1 (MQ=255)
                                            gagaGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGgc                                                                                    <  2:23777/135‑1 (MQ=255)
                                             agagCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGgcg                                                                                   >  6:202657/1‑135 (MQ=255)
                                             agagAAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGGTTCGCCAGCGCACGCTGTGgcg                                                                                   <  5:16323/135‑1 (MQ=255)
                                               agCAACACGCTGGAGGTGAACATCTACCATTTGCTCTAGTAGCTGATCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGGCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGcgcg                                                                                 <  6:98314/135‑1 (MQ=255)
                                                   acacGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGAt                                                                             <  4:130917/135‑1 (MQ=255)
                                                    cacGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGc                                                                           <  7:125153/136‑1 (MQ=255)
                                                     acGCTGGAGGTGAACATCTATCTTTTGCGCAAGATGCTGTTCTACGGCCTGATTCGCACGGTGCGCGGATATGGCTATCTAGTCGAGGTGAAGGCATGACCTCGCTTGGCCAGCGCACGCTGTGGCGCGTGATgg                                                                           <  2:77974/135‑2 (MQ=255)
                                                            agcagAACATCAACCATTTGCGCAAGATGCTGTTCAACGCCCTGATTCGCACGGTGCGCGGAATTGGCTATCTAGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTtgct                                                                    >  1:77974/5‑135 (MQ=255)
                                                            aGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTg                                                                                                                                 <  7:155504/74‑1 (MQ=255)
                                                            aGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTg                                                                                                                                 >  8:155504/1‑74 (MQ=255)
                                                            aGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTtgct                                                                    >  1:261394/1‑135 (MQ=255)
                                                            aGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTtg                                                                      <  6:8322/133‑1 (MQ=255)
                                                            aGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTAGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGc                                                                           <  2:81704/128‑1 (MQ=255)
                                                            aGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTAGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGc                                                                           >  1:81704/1‑128 (MQ=255)
                                                              gTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTgctgct                                                                 <  8:230049/136‑1 (MQ=255)
                                                              gTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGGGCGCGGAATTGGCTATCTGGTCGAGGGCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGTCGCGTGATGCTCTTgctgct                                                                 <  8:111899/136‑1 (MQ=255)
                                                               tGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTgctgct                                                                 <  4:188812/135‑1 (MQ=255)
                                                               tGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTgctgct                                                                 <  2:97652/135‑1 (MQ=255)
                                                               tGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTa                                                                <  7:102042/136‑1 (MQ=255)
                                                                    aTCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCg                                                            >  6:119654/1‑135 (MQ=255)
                                                                                cgcAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTg                                                                                                                                 >  1:206415/1‑54 (MQ=255)
                                                                                cgcAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGc                                                <  7:18789/135‑1 (MQ=255)
                                                                                cgcAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGAGGAATTGGCTATCTg                                                                                                                                 <  2:206415/54‑1 (MQ=255)
                                                                                 tcacgaagCAGATCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCTTGGCATGTCCTCGCTTCGCCAGCGCTCGCTGTGGCGCTTGATGCTCTTGCTGCTACTCGGTACCGGCTTGc                                                <  5:270288/130‑1 (MQ=255)
                                                                                 gcAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGAt                                                                             >  3:151241/1‑105 (MQ=255)
                                                                                 gcAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGAt                                                                             <  4:151241/105‑1 (MQ=255)
                                                                                 gcAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTc                                              <  8:247752/136‑1 (MQ=255)
                                                                                  cAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTcg                                             <  7:144923/136‑1 (MQ=255)
                                                                                  cAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTc                                              <  2:199375/135‑1 (MQ=255)
                                                                                  cAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTc                                              <  1:143551/135‑1 (MQ=255)
                                                                                   aagaagCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTcgc                                            <  8:181960/136‑1 (MQ=255)
                                                                                              cAACAGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTcgc                                            <  5:223088/125‑1 (MQ=255)
                                                                                              cAACAGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTcgc                                            >  6:223088/1‑125 (MQ=255)
                                                                                               aaCGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTCGCGCTCTATAACTa                                >  7:202280/1‑136 (MQ=255)
                                                                                                    ccTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTCGCGCTCTATAACTACCAc                            >  6:160238/1‑135 (MQ=255)
                                                                                                      tGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTCGCGCTCTATAACTACCACGa                          >  2:144853/1‑135 (MQ=255)
                                                                                                                ggTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTcg                                             <  1:250016/106‑1 (MQ=255)
                                                                                                                ggTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTcg                                             >  2:250016/1‑106 (MQ=255)
                                                                                                                    cgcgGATTGGGCTATGTGTGCGCGGTCAAGGATTGACGTCGCTTCGCCCGCGCAGGCTGTGGCGCTTGAGGGTATTGCTGCTACTCGGTACCGGCTTGCTCGCGCTCTATAACAACCACGACAGCAGCCACGAAAt           <  8:156184/136‑1 (MQ=255)
                                                                                                                     gcgGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTCGCGCTCTATAACTACCACGACAGCAGCCACGAAAt           >  7:166223/1‑135 (MQ=255)
                                                                                                                      cgGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGGGGCGCGTGATGCTCTTGCTGCTCCTCGGTCCCGGCTTGCTCGCGCTCTATAACTACCACGACAGCAGCCACGAAAtt          <  4:62334/135‑1 (MQ=255)
                                                                                                                      cgGAATTGGATTTCTGGTCCTGCTCCAGGCAGGACCGCGCGCCGCCAGCGCACGCGGTGGGGCGTGTGGCTCTTGCTGCTACTCGGAACCGGCTTGCTCGCGCTATATAACACCCACGACAGCAGCCACGAAAtt          <  4:9198/135‑1 (MQ=255)
                                                                                                                               cTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTCGCGCTCTATAACTACCACGACAGCAGCCACGAAATTAACGAGGt  >  3:204322/1‑134 (MQ=255)
                                                                                                                                     |                                                                                                                               
GTGAGCGCCTGACTCAACTGCTGTATGGCTGGGATGAAGAGCCGGAGAGCAACACGCTGGAGGTGAACATCTACCATTTGCGCAAGAAGCTGTTCAACGGCCTGATTCGCACGGTGCGCGGAATTGGCTATCTGGTCGAGGTCAAGGCATGACCTCGCTTCGCCAGCGCACGCTGTGGCGCGTGATGCTCTTGCTGCTACTCGGTACCGGCTTGCTCGCGCTCTATAACTACCACGACAGCAGCCACGAAATTAACGAGGT  >  KT2440/3096382‑3096642

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: ‑