Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,917,966 T→C 20.9% V122A (GTC→GCC) ‡ PP_4328 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,917,9660TC20.9% 79.0 / 17.6 43V122A (GTC→GCC) ‡PP_4328hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (16/18);  new base C (5/4);  total (21/22)
Fisher's exact test for biased strand distribution p-value = 7.21e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.41e-01

CAACGCCAGCCAGCCGCTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGCCACACTGAGCATCGACAGCCCGCG  >  NC_002947/4917826‑4918104
                                                                                                                                            |                                                                                                                                          
cAACGCCAGCCAGCCGCTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCt                                                                                                                                    >  5:109908/1‑149 (MQ=255)
   cGCCAGCCAGCCGCTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTtgc                                                                                                                                 <  7:287618/149‑1 (MQ=255)
      cagccagcCGCTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGACCGGCACCTtgctgg                                                                                                                              >  3:290675/1‑148 (MQ=255)
         ccagccGCTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTgcaag                                                                                                                           <  5:233184/149‑1 (MQ=255)
          cagccGCTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGACCGGCACCTtgctggtgtc                                                                                                                          <  4:290675/149‑6 (MQ=255)
           agccGCTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTgcaaggc                                                                                                                         <  8:220951/149‑1 (MQ=255)
                cTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGACCGGCACCTtgc                                                                                                                                 >  1:56117/1‑136 (MQ=255)
                cTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGACCGGCACCTtgc                                                                                                                                 <  2:56117/136‑1 (MQ=255)
                     ccAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGa                                                                                                               <  8:10619/149‑1 (MQ=255)
                     ccAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGa                                                                                                               <  5:184351/149‑1 (MQ=255)
                     ccAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCAGGACACCAGCAAGGTGCTGGTCGGCACCTTGCTGCAACGCAAGGTCCTg                                                                                                                >  6:333641/1‑148 (MQ=255)
                                   tCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGctgctg                                                                                                 <  3:302693/149‑1 (MQ=255)
                                                  ccGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGc                                                                                  <  4:76590/149‑1 (MQ=255)
                                                                 tGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTAc                                                                   >  3:233784/1‑149 (MQ=255)
                                                                  ggCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTtgctgc                                                                                                                              >  3:268284/1‑89 (MQ=255)
                                                                  ggCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTtgctgc                                                                                                                              <  4:268284/89‑1 (MQ=255)
                                                                    cGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCgg                                                                <  6:109908/149‑1 (MQ=255)
                                                                         aTGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGgcgc                                                            <  4:233784/148‑1 (MQ=255)
                                                                               cAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAg                                                     <  5:218944/149‑1 (MQ=255)
                                                                                aaCAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCCGCCAACCGGCCGTGTACCGGGCGCTGGTCAGc                                                    >  7:114196/1‑149 (MQ=255)
                                                                                     gccagcgccagcCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCt                                               >  1:68579/1‑149 (MQ=255)
                                                                                      ccagcgccagcCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCGGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTc                                              <  5:333641/149‑1 (MQ=255)
                                                                                       cagcgccagcCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCa                                                      >  7:220862/1‑140 (MQ=255)
                                                                                       cagcgccagcCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCa                                                      <  8:220862/140‑1 (MQ=255)
                                                                                       cagcgccagcCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTc                                              >  8:63276/1‑148 (MQ=255)
                                                                                              agccagGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCaa                                      >  5:56287/1‑149 (MQ=255)
                                                                                                    gTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGc                                >  8:242300/1‑149 (MQ=255)
                                                                                                          aCCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGc                          <  7:242300/149‑1 (MQ=255)
                                                                                                           cccTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGt                            <  3:241714/146‑1 (MQ=255)
                                                                                                           cccTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGt                            >  4:241714/1‑146 (MQ=255)
                                                                                                             cTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGCca                        >  3:37430/1‑148 (MQ=255)
                                                                                                                aCCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCATCCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGCCACACt                    <  8:114196/149‑1 (MQ=255)
                                                                                                                aCCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGCCACACt                    >  8:210464/1‑149 (MQ=255)
                                                                                                                          cttgcAGCAAGGTGCCGACCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGCCACACTGAGCATCGa           >  3:256649/5‑148 (MQ=255)
                                                                                                                            acCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCa                                                                                            >  4:97598/1‑65 (MQ=255)
                                                                                                                            acCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCa                                                                                            <  3:97598/65‑1 (MQ=255)
                                                                                                                             ccAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGCCACACTGAGCATCGACAgc       <  8:289811/149‑1 (MQ=255)
                                                                                                                              cAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGCCACACTGAGCATCGACAgcc      >  4:307862/1‑149 (MQ=255)
                                                                                                                               aGCAAGGTGCCGACCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCgg                                                                >  6:101347/1‑90 (MQ=255)
                                                                                                                               aGCAAGGTGCCGACCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCgg                                                                <  5:101347/90‑1 (MQ=255)
                                                                                                                                gCAAGGTGCCGACCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAg                                  <  2:132484/119‑1 (MQ=255)
                                                                                                                                gCAAGGTGCCGACCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAg                                  >  1:132484/1‑119 (MQ=255)
                                                                                                                                  aaGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGCCACACTGAGCATCGACAgcccgcg  >  4:59464/1‑149 (MQ=255)
                                                                                                                                            |                                                                                                                                          
CAACGCCAGCCAGCCGCTGCCCCAGGGCAGCCAGATCACCGTCAGCCAGACCGAAAGCAATCGCCTGGCGATCATGCTGCAACAGGCCAGCGCCAGCCAGGTCGCCACCCTCACCCAGCTGGACACCAGCAAGGTGCCGGTCGGCACCTTGCTGCAAGGCAAGGTCCTGACCAACCAGCTGCTGGCCCAGGCACCCGGCCAACCGGCCGTGTACCGGGCGCTGGTCAGCCTGCTCAACAGCAACCAGGCCGGTGCCACACTGAGCATCGACAGCCCGCG  >  NC_002947/4917826‑4918104

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: ‑