Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 2,979,199 C→A 9.3% P60H (CCT→CAT)  lysR → transcriptional activator of lysA; autorepressor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,979,1990CA 9.3% 110.0 / 3.4 51P60H (CCT→CAT) lysRtranscriptional activator of lysA; autorepressor
Reads supporting (aligned to +/- strand):  ref base C (20/26);  new base A (2/3);  total (22/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.08e-01

TTTTTCATGCGGTAATGACCGCCGGAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCGGTCTTTTCGCAATCTTTTTT  >  NC_000913/2979052‑2979346
                                                                                                                                                   |                                                                                                                                                   
tttttCATGCGGTAATGACCGCCGGAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCt                                                                                                                                                    >  1:359973/1‑149 (MQ=255)
 ttttCATGCGGTAATGACCGCCGGAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGGCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTa                                                                                                                                                   <  1:288201/149‑1 (MQ=255)
       tGCGGTAATGACCGCCGGAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGc                                                                                                                                             <  1:96294/149‑1 (MQ=255)
         cGGTAATGACCGCCGGAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGAGTACATCCTACCGTGCaa                                                                                                                                           >  1:688544/1‑149 (MQ=255)
          ggTAATGACCGCCGGAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAg                                                                                                                                          <  2:905796/149‑1 (MQ=255)
                gACCGCCGGAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCATACCGTGCAAGGACTgt                                                                                                                                    >  2:965316/1‑148 (MQ=255)
                gACCGCCGGAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCATACCGTGCAAGGACTGc                                                                                                                                    >  2:406927/1‑149 (MQ=255)
                  ccgccgGAAGGCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCTACCGTCAGCCGGGAACTTGCGCGCTTTGAGTAGGTGATCGGGCTGATATTGTTTGAGCGCGTACGTGGTCGATTACATCCTACCGTGCAAGGACTGCGt                                                                                                                                  <  1:902870/149‑1 (MQ=255)
                      cgGAAGCCTGACTGAGGCGGCTCACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGt                                                                                                                              <  1:858701/149‑1 (MQ=255)
                        gAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGttt                                                                                                                            <  1:823047/149‑1 (MQ=255)
                            ccTGACTGAGGCGGCACACCTGCTACCCCCCTCACAGCCACCCGTCAGCCGCGAACGTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGGTTgaag                                                                                                                        >  2:1018278/1‑149 (MQ=255)
                            ccTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTgaag                                                                                                                        <  1:414657/149‑1 (MQ=255)
                              tgactgaGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTgaagaa                                                                                                                      <  2:359973/149‑1 (MQ=255)
                              tgacagaGGCGGCACACCTGCTACCCCCCTCCCAGCCAACCGTCAGCCTCGAACTTGCGCGCTTTGAGAAGGTGAGAGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACTTCCTACCGTGCAAGGACTGCGTCTGTTTgaagaa                                                                                                                      <  2:1004177/149‑1 (MQ=255)
                                    atgcggcACACCTGCTACACACGTACCAGCCTACCGGCAGCCGCGAACTTGCGCGCGTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGcta                                                                                                                <  2:307164/147‑3 (MQ=255)
                                         gcACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTGGCGCGCTTTGAGAAGGTGCTCGGGATGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAACTGCAACGAta                                                                                                           >  2:485413/1‑148 (MQ=255)
                                                     cacacCTCAGAGCCAACCTTCAGCCGCGAAGTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTTCCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACt                                                                                               <  1:118820/149‑1 (MQ=255)
                                                      acacCTCACAGCCACCCGTCAGCCGCGAACTTTCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTg                                                                                              <  2:935214/149‑1 (MQ=255)
                                                      acacCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTg                                                                                              <  1:1010805/149‑1 (MQ=255)
                                                        acCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGa                                                                                            >  2:792084/1‑149 (MQ=255)
                                                          cTCACAGCCAACCGTCCGCCGCGAACTTGCGCGCGTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATc                                                                                          <  2:124242/149‑1 (MQ=255)
                                                          cTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACCTCCTACCGTGCAAGGACGGCGTCTGTATGAAGAAGTGCAACGATCCTGGTACGGACTGGATc                                                                                          >  2:124749/1‑149 (MQ=255)
                                                            cacaGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTg                                                                                                                   <  1:551631/122‑1 (MQ=255)
                                                            cacaGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTg                                                                                                                   >  2:551631/1‑122 (MQ=255)
                                                               aGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCAtt                                                                                     >  1:749778/1‑149 (MQ=255)
                                                               aGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCAtt                                                                                     <  2:417174/149‑1 (MQ=255)
                                                               aGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCAtt                                                                                     >  1:657941/1‑149 (MQ=255)
                                                                      cGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGCAGTGCACCGCTCCTGGTACGGACTGGATCGCATTGTCAgcg                                                                              >  2:210178/1‑149 (MQ=255)
                                                                        tCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGGGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGcgcc                                                                            <  2:319265/149‑1 (MQ=255)
                                                                        gcAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGTCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGcgcc                                                                            <  1:392746/148‑1 (MQ=255)
                                                                            ccGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGCTACGGACAGGATCGCATTGTCAGCGCCGCAg                                                                        >  2:976183/1‑149 (MQ=255)
                                                                                    ttGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGGCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTg                                                                >  2:58562/1‑149 (MQ=255)
                                                                                        gcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGcgcg                                                            >  2:796485/1‑149 (MQ=255)
                                                                                        gcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGcgcg                                                            >  1:789993/1‑149 (MQ=255)
                                                                                              tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTCCCGTGCACGGACTGCGTCTGTGTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCTCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGGTTc                                                      >  1:688489/1‑149 (MQ=255)
                                                                                              tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTc                                                      >  2:136039/1‑149 (MQ=255)
                                                                                                       gagcGGGCTGAAATTGTGTGAGCTCGTACGTGGGCGATTACATCATACCCTGCAAGGCCTGCGGCTGGTTGAAGAACTGCAACGATCCTGGTAGGGACTGGATCGCTTTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGgag                                             <  2:967028/146‑1 (MQ=255)
                                                                                                        ttCGGGCTGAAATTGTGTGAGCGCGGACGTGGGGGATTACATCCTACCGTGCAAGGACTGCGGCTGTTTGACTAAGTGCAACGATCCTGGTACGGTCTGGATCGCTATGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGGCAGGgaga                                            <  2:688544/148‑1 (MQ=255)
                                                                                                           tggatGAAATTGTGTGAGCTAGTACGTGGGCGATTCCATCCTACCGTTCAATGACTTCGTCTGTGTGAAGAAGTGAAACGATCCTTGTACGGACTGTATCGCATTGTCAGCGCCTCAGAAAGTCTGCGCGAGTTTCGCCAGGGATAACt                                         <  1:439904/145‑1 (MQ=255)
                                                                                                                      gtctGAGCGCGCACGGGGGCGATTACATCCTACCGCGCCAGGACTGCGTCTGTTTGCAGAAGTGCAACGATCCAGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGACCTGTCTATtgcct                              <  1:210178/146‑1 (MQ=255)
                                                                                                                      gTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATtgcct                              <  1:792084/149‑1 (MQ=255)
                                                                                                                          gAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCCTCTGTTTGAAGAAGAGCAACTATCCTGGTTCGGACTGGATCGCATTGACAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCACGGAGAACTGTCTATtgcctgcct                          >  1:788662/1‑149 (MQ=255)
                                                                                                                              gcgTACGGGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCg                      <  1:742126/149‑1 (MQ=255)
                                                                                                                               cgTACGTGGGCGATTACATCATACCGTGCAAGGACTGTGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCgg                     <  1:965316/149‑1 (MQ=255)
                                                                                                                               cgTACGTGGGCGATTACATCATACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCgg                     <  1:406927/149‑1 (MQ=255)
                                                                                                                                    gTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAATGTCTGCGCGAGTTTCGCCAGGGAGTACTGTCTATTGCCTGCCTGCCGGTCttt                <  2:749778/149‑1 (MQ=255)
                                                                                                                                    gTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCGGTCttt                >  1:582227/1‑149 (MQ=255)
                                                                                                                                          gATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCGGTCTTTTCGCaa          >  1:755096/1‑149 (MQ=255)
                                                                                                                                               cATCCTACCGTGCAAGGCCTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGGCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCGGTCTTTTCGCAATCttt     <  1:997991/149‑1 (MQ=255)
                                                                                                                                               cATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCGGTCTTTTCGCAATCttt     >  2:34154/1‑149 (MQ=255)
                                                                                                                                                aTCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGGGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCGGTCTTTTCGCAATCtttt    <  2:53397/149‑1 (MQ=255)
                                                                                                                                                  ccTACCGTGCAAGGAGTCCGTCTGTGTGAAGAACTTCAACGATCCTGGTACGTACTGGATCGCATTGTCAGCGCCGCAGAATGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCGGTCTTTTCGCAATCtatttt  <  2:820090/149‑1 (MQ=255)
                                                                                                                                                   |                                                                                                                                                   
TTTTTCATGCGGTAATGACCGCCGGAAGCCTGACTGAGGCGGCACACCTGCTACACACCTCACAGCCAACCGTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGGTACGGACTGGATCGCATTGTCAGCGCCGCAGAAAGTCTGCGCGAGTTTCGCCAGGGAGAACTGTCTATTGCCTGCCTGCCGGTCTTTTCGCAATCTTTTTT  >  NC_000913/2979052‑2979346

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: ‑