Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,466,791 C→T 8.9% D178D (GAC→GAT)  nhaA‑II → Na(+)/H(+) antiporter NhaA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,466,7910CT 8.9% 121.3 / 2.8 45D178D (GAC→GAT) nhaA‑IINa(+)/H(+) antiporter NhaA
Reads supporting (aligned to +/- strand):  ref base C (21/20);  new base T (2/2);  total (23/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.55e-01

TCACGCGCCAGCAGACCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAGCCTACGCCTATGTCATTCCCGGTGC  >  NC_002947/4466650‑4466937
                                                                                                                                               |                                                                                                                                                  
tCACGCGCCAGCAGACCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCg                                                                                                                                             >  4:167323/1‑149 (MQ=255)
     cgcCAGCAGACCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTc                                                                                                                                        <  3:244764/149‑1 (MQ=255)
          gcagACCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCGACCCTGGCAATCATCGATGACATCATCGCAGTCCTGa                                                                                                                                    <  1:180803/149‑1 (MQ=255)
          gcagACCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGa                                                                                                                                    >  1:107334/1‑148 (MQ=255)
           cagTCCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGat                                                                                                                                   <  2:206121/148‑1 (MQ=255)
           cagACCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGat                                                                                                                                   >  3:192202/1‑148 (MQ=255)
              aCCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGatcatc                                                                                                                               <  4:206399/149‑1 (MQ=255)
              aCCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGatcatc                                                                                                                               <  5:91963/149‑1 (MQ=255)
                  acaaGGTTGGGCCGTGCCAACGGCGACGGAAATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGt                                                                                                                           >  1:25022/1‑149 (MQ=255)
                                   cAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAggcggc                                                                                                          >  7:229577/1‑149 (MQ=255)
                                   cAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAggcggc                                                                                                          <  4:193119/149‑1 (MQ=255)
                                    aaCGGCGACGGATATCGCCTTTGCGGTGGGCGTATTGGGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCATTCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAggcggc                                                                                                          >  1:44064/1‑149 (MQ=255)
                                    aaCGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGcc                                                                                                         >  4:212171/1‑149 (MQ=255)
                                        gCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGa                                                                                                     <  8:229577/149‑1 (MQ=255)
                                          gACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGAt                                                                                                    >  2:7577/1‑148 (MQ=255)
                                              gATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTacac                                                                                               <  3:212171/149‑1 (MQ=255)
                                                 atCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCgg                                                                                            >  3:229626/1‑149 (MQ=255)
                                                       tttGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGATATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCgg                                                                                      >  8:134017/1‑149 (MQ=255)
                                                       tttGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGATATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGCCGGCCTTGATTACACCGGCTTCgg                                                                                      >  8:130322/1‑149 (MQ=255)
                                                            ggTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTg                                                                                 <  3:167323/149‑1 (MQ=255)
                                                                          gCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCt                                                                    >  6:54568/1‑149 (MQ=255)
                                                                                  cGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGTCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATgt                                                            >  2:133380/1‑148 (MQ=255)
                                                                                      aaGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGa                                                         >  1:217755/1‑148 (MQ=255)
                                                                                       aGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATc                                                       <  2:217755/149‑1 (MQ=255)
                                                                                           gATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGc                                                   >  4:85467/1‑149 (MQ=255)
                                                                                               ccGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGc                                                                      >  6:106831/1‑126 (MQ=255)
                                                                                               ccGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGc                                                                      <  5:106831/126‑1 (MQ=255)
                                                                                                     aaCGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGAt                                         <  1:7577/149‑1 (MQ=255)
                                                                                                         tacgtGTATTCCTCCTCG‑CCCTGGCAATCATCGATGATATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGa                                     <  7:134017/149‑1 (MQ=255)
                                                                                                         tacgtGTATTCCTCCTCG‑CCCTGGCAATCATCGATGATATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGa                                     <  7:130322/149‑1 (MQ=255)
                                                                                                          acgtGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGAt                                                        <  7:244492/129‑1 (MQ=255)
                                                                                                          acgtGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGAt                                                        >  8:244492/1‑129 (MQ=255)
                                                                                                           cgtGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCagaa                                            >  1:256002/1‑140 (MQ=255)
                                                                                                           cgtGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCagaa                                            <  2:256002/140‑1 (MQ=255)
                                                                                                                 ttCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGtt                              >  5:10797/1‑148 (MQ=255)
                                                                                                                   cctcctCG‑CCATGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAg                           >  8:208835/1‑149 (MQ=255)
                                                                                                                    ctcctcG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAGc                          >  6:33070/1‑149 (MQ=255)
                                                                                                                                 gCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCGTTTATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTTGGTTCAGCCTACGCCTa                 <  5:52346/146‑1 (MQ=255)
                                                                                                                                 gCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAGCCTACGCCTAt                <  5:54568/147‑1 (MQ=255)
                                                                                                                                 gCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGAGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATAGGGCTTCAGAAGATCGGAGTGGGTTCAGCCTACGACTa                 >  6:52346/1‑146 (MQ=255)
                                                                                                                                  cAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAGCCTACGCCTATGTc             <  4:192202/149‑1 (MQ=255)
                                                                                                                                   aaTCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAGCCTACGCCTATGTCa            >  4:120851/1‑149 (MQ=255)
                                                                                                                                          gATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAGCCTACGCCTATGTCATTCCCg      <  2:44064/148‑1 (MQ=255)
                                                                                                                                           aTGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTTCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAGCCTACGCCTATGTCATTCCCGGt    <  7:208835/149‑1 (MQ=255)
                                                                                                                                              aCATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAGCCTACGCCTATGTCATTCCCGGTGc  <  5:133983/148‑1 (MQ=255)
                                                                                                                                               |                                                                                                                                                  
TCACGCGCCAGCAGACCAACAAGGTTGGGCCGTGCCAACGGCGACGGATATCGCCTTTGCGGTGGGCGTATT‑GGCCCTGCTCGGCAAGTCGATCCCGTCCAACGTACGTGTATTCCTCCTCG‑CCCTGGCAATCATCGATGACATCATCGCAGTCCTGATCATCGCGTTCTTCTACTCAGGCGGCCTTGATTACACCGGCTTCGGCGTTGCAGTGATCGGCCTGCTAATGGTGATCGGGCTTCAGAAGATCGGAGTGGGTTCAGCCTACGCCTATGTCATTCCCGGTGC  >  NC_002947/4466650‑4466937

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: ‑