Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,884,637 A→G 10.5% Q174Q (CAA→CAG)  PP_3429 → two component system response regulator/sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,884,6370AG10.5% 94.5 / 2.7 39Q174Q (CAA→CAG) PP_3429two component system response regulator/sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base A (21/13);  new base G (2/2);  total (24/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.06e-01

GCAACCGGCGGCGACAGTACGTGACACGTGATCAACTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCTGTGCATGGGCCGCGAGGCCGTTTCACGCGCCG  >  NC_002947/3884492‑3884785
                                                                                                                                                 |                                                                                                                                                     
gcAACCGGCGGCGACAGTACGTGACACGTGATCAACTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTg                                                                                                                                                    >  3:186333/1‑149 (MQ=255)
 cAACCGGCGGCGACAGTACGTGACACGTGATCAACTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCACCTgg                                                                                                                                                   >  6:18571/1‑149 (MQ=255)
     cggcggCGACAGTACGTGACACGTTATCAACTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCcgg                                                                                                                                               <  1:352085/149‑1 (MQ=255)
               aGTACGTGACACGTGATCAACTCCATGGCATGCAGCAGCGCCTGGACTGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGcc                                                                                                                                     <  3:208251/149‑1 (MQ=255)
               aGTACGTGACACGTGATCAACTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGCACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGcc                                                                                                                                     >  2:61104/1‑149 (MQ=255)
                             gATCAACTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCACCGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTcaacaa                                                                                                                       >  5:29251/1‑149 (MQ=255)
                                 aaCTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACCACCTg                                                                                                                   >  8:15598/1‑149 (MQ=255)
                                  aCTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTcaa                                                                                                                          <  1:145829/141‑1 (MQ=255)
                                  aCTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTcaa                                                                                                                          >  2:145829/1‑141 (MQ=255)
                                      cATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCAc                                                                                                              >  3:127566/1‑149 (MQ=255)
                                      cATGGCATGCAGCAGCGCCTGGACAGCCAGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCAc                                                                                                              <  2:345279/149‑1 (MQ=255)
                                          gCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAg                                                                                                           >  6:195561/1‑148 (MQ=255)
                                              gcagcaGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCAt                                                                                                        >  2:355676/1‑147 (MQ=255)
                                                agcagcGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGc                                                                                                    <  4:186333/149‑1 (MQ=255)
                                                 gcagcGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCg                                                                                                   >  3:191920/1‑149 (MQ=255)
                                                           gACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCg                                                                                          >  3:133460/1‑148 (MQ=255)
                                                             cAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAAc                                                                                       <  4:127566/149‑1 (MQ=255)
                                                                                       tGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCGATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGATCTCATCCAGCGGCGCCT‑GCGCCAAGGc                                                            <  1:61104/149‑1 (MQ=255)
                                                                                         cAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCg                                                          <  4:191920/149‑1 (MQ=255)
                                                                                           ggACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCg                                                          >  2:126374/1‑147 (MQ=255)
                                                                                                   gTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTc                                                                                                                            >  2:229419/1‑74 (MQ=255)
                                                                                                   gTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTc                                                                                                                            <  1:229419/74‑1 (MQ=255)
                                                                                                     gAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCt                                              >  1:183374/1‑149 (MQ=255)
                                                                                                        ttCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGa                                           >  8:202869/1‑149 (MQ=255)
                                                                                                        ttCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGa                                           >  5:163107/1‑149 (MQ=255)
                                                                                                              cGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGt                                     >  2:163631/1‑149 (MQ=255)
                                                                                                               gCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGtt                                    >  6:207232/1‑149 (MQ=255)
                                                                                                                 tGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCCCCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGAt                                          >  2:21868/1‑141 (MQ=255)
                                                                                                                 tGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCTAGCGCCAAGGCCGCAGCGACGGCCTGGAt                                          <  1:21868/142‑1 (MQ=255)
                                                                                                                                 tGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCTGTGc                              <  5:2289/137‑1 (MQ=255)
                                                                                                                                 tGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCTGTGc                              >  6:2289/1‑137 (MQ=255)
                                                                                                                                      gCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCt                                  >  4:118537/1‑128 (MQ=255)
                                                                                                                                      gCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCt                                  <  3:118537/128‑1 (MQ=255)
                                                                                                                                        cgccGGCCAGTTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCtgt                                >  7:131802/4‑128 (MQ=255)
                                                                                                                                        cgccGGCCAGTTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCtgt                                <  8:131802/125‑1 (MQ=255)
                                                                                                                                        cgccGGCCAGTTGACCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCTGTGCATGGGCCGCGAGGCCg              <  5:212002/143‑1 (MQ=255)
                                                                                                                                        cgccGGCCAGTTGACCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCTGTGCATGGGCCGCGAGGCCg              >  6:212002/4‑146 (MQ=255)
                                                                                                                                        cATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCTGTGCATGGGCCGCGAGGCCGttt           >  3:293134/1‑149 (MQ=255)
                                                                                                                                        cATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCTGTGCATGGGCCGCGAGGCCGttt           <  6:29251/149‑1 (MQ=255)
                                                                                                                                                 aCTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGTAGCGACGGCCTGGATGGCGTTCTGTGCATGGGCCGCGAGGCCGTTTCACGcgccg  <  1:126374/149‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                                     
GCAACCGGCGGCGACAGTACGTGACACGTGATCAACTCCATGGCATGCAGCAGCGCCTGGACAGCCGGCCTTCAACGCCGGAAGAAGTGCAGGACCGCGGTGAGTTCGCCCGCTGCCAGGCACGCAAGATGGAGGCCATCGGCCAACTGGCCGGCGGCGTCGCCCATGACTTCAACAACCTGCTCACCAGCATCAGCGGCAGCTTCGAACTCATCCAGCGGCGCCT‑GCGCCAAGGCCGCAGCGACGGCCTGGATGGCGTTCTGTGCATGGGCCGCGAGGCCGTTTCACGCGCCG  >  NC_002947/3884492‑3884785

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: ‑