Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,872,030 G→T 8.3% F117L (TTC→TTA) ‡ PP_3420 ← sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,872,0300GT 8.3% 144.4 / 3.2 48F117L (TTC→TTA) ‡PP_3420sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base G (22/22);  new base T (2/2);  total (24/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.85e-01

GCGCGAGCGGAAGGCGCGCTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTGGGCCATTGCCTGAATGAACTGCG  >  NC_002947/3871886‑3872178
                                                                                                                                                |                                                                                                                                                     
gcgcGAGCGGAAGGCGCGCTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAAc                                                                                                                                                    <  2:97136/148‑1 (MQ=255)
  gcgAGCGGAAGGCGCGCTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGTCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTc                                                                                                                                                  >  8:315967/1‑148 (MQ=255)
  gcgAGCGGAAGGCGCGCTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTc                                                                                                                                                  >  2:55185/1‑148 (MQ=255)
    gAGCGGAAGGCGCGCTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGAt                                                                                                                                               >  6:213934/1‑149 (MQ=255)
       cGGAAGGCGCGCTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGTTCCTCGATcat                                                                                                                                            <  1:269373/149‑3 (MQ=255)
            ggCGCGCTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCg                                                                                                                                       <  1:227463/149‑1 (MQ=255)
              cgcgcTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGAt                                                                                                                                     >  5:8879/1‑149 (MQ=255)
                 gcTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCg                                                                                                                                  <  6:233736/149‑1 (MQ=255)
                     aaGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGc                                                                                                                                >  7:280218/1‑147 (MQ=255)
                     aaGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGc                                                                                                                                <  5:213934/147‑1 (MQ=255)
                       gATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAgg                                                                                                                            >  2:258956/1‑149 (MQ=255)
                       gATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAgg                                                                                                                            <  2:203980/149‑1 (MQ=255)
                            ccATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCgg                                                                                                                       <  5:97991/149‑1 (MQ=255)
                             cATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCggg                                                                                                                      <  8:280218/149‑1 (MQ=255)
                             cATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCggg                                                                                                                      >  3:295978/1‑149 (MQ=255)
                                 aGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGa                                                                                                                  <  1:55185/149‑1 (MQ=255)
                                                    aTCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTc                                                                                               >  7:62257/1‑149 (MQ=255)
                                                          tCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGc                                                                                                             >  4:147677/1‑129 (MQ=255)
                                                                ttGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCAGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑c                                                                                  >  4:296512/1‑149 (MQ=255)
                                                                   gtggACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCa                                                                                <  4:239296/148‑1 (MQ=255)
                                                                   gtggACCAGACAATGGTGCGGGCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCa                                                                                <  1:260539/148‑1 (MQ=255)
                                                                      gACCAGACAATGGTGCGGTCGCGGGCATAGACATTGTCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCaa                                                                            <  7:315967/149‑1 (MQ=255)
                                                                      gACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCaa                                                                            >  6:223670/1‑149 (MQ=255)
                                                                              aaTGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCa                                                                    >  3:318470/1‑149 (MQ=255)
                                                                                   tGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCAtggtg                                                               <  6:8879/149‑1 (MQ=255)
                                                                                          gcgGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAg                                                        >  4:12276/1‑149 (MQ=255)
                                                                                          gcgGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAg                                                        <  3:12276/149‑1 (MQ=255)
                                                                                              gCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAggcgg                                                    >  2:278718/1‑149 (MQ=255)
                                                                                                  aGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAAt                                                >  1:95998/1‑149 (MQ=255)
                                                                                                     cATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGAGCCAGGCGGCAATTGc                                             <  3:296512/149‑1 (MQ=255)
                                                                                                         ggCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCAAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAAt                                         >  8:203946/1‑149 (MQ=255)
                                                                                                          gCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATg                                        >  7:95715/1‑149 (MQ=255)
                                                                                                              gCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGc                                    <  1:278718/149‑1 (MQ=255)
                                                                                                                     gtCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGc                                             >  4:110926/1‑133 (MQ=255)
                                                                                                                     gtCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGc                                             <  3:110926/133‑1 (MQ=255)
                                                                                                                     gtCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTc                               >  4:195519/1‑147 (MQ=255)
                                                                                                                     gtCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTc                               <  3:195519/147‑1 (MQ=255)
                                                                                                                       ccGGCAGGGGCTCGACATTATCGACGAACTCGATCCGGGTCGATTCGGCCATGGCCGGGGTGACCTTCAAGTGCTTCAGGGCCATCCGCGGGTCCCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGTGAATGCCGCACTTCGGc                            <  1:258956/149‑1 (MQ=255)
                                                                                                                          gCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTgg                        <  5:223670/149‑1 (MQ=255)
                                                                                                                            aGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTGGGc                      <  7:203946/149‑1 (MQ=255)
                                                                                                                                     aCATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTggg                       >  4:102641/1‑139 (MQ=255)
                                                                                                                                     aCATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTggg                       <  3:102641/139‑1 (MQ=255)
                                                                                                                                      ccggATCGAGTTCCTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTgg                        <  7:75510/134‑1 (MQ=255)
                                                                                                                                      ccggATCGAGTTCCTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTgg                        >  8:75510/4‑137 (MQ=255)
                                                                                                                                        ggATCGAGTTCCTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTGGGCCATTGCCtgaat          >  8:222306/2‑149 (MQ=255)
                                                                                                                                         gATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTGGGCCATTGCCtgaat          >  4:250504/1‑148 (MQ=255)
                                                                                                                                          aTCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTGGGCCATTGCCtgaatg         >  3:252104/1‑148 (MQ=255)
                                                                                                                                             gAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTGGGCCATTGCCTGAATGAAc      <  8:62257/148‑1 (MQ=255)
                                                                                                                                                gAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTGGGCCATTGCCTGAATGAACTgcg  >  3:36879/1‑149 (MQ=255)
                                                                                                                                                |                                                                                                                                                     
GCGCGAGCGGAAGGCGCGCTCAAGATCGCCATCAGCCTCTATCCGCTTGCCAATCAGCTCCACGTTGGTGGACCAGACAATGGTGCGGTCGCGGGCATAGACATTGGCCAGCAAGGTGTCCGGCAGGTGCTCGACATGATCGAGGAACTCGATCCGGGTCGATTCGGCCAGGGCCGGGGTGACCTGCAAGTGCTGCAGGTCCAGCCGCGGGT‑CCAGCAACTCGCCCATGGTGGTGCCAGGCGGCAATTGCGAATGCCGCACTTCGGCCTGGGCCATTGCCTGAATGAACTGCG  >  NC_002947/3871886‑3872178

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑