Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24402,770,0750TG53.6% 12.2 / 28.0 31S163R (AGC→CGC) CJ019_02613hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (6/7);  new base G (14/1);  total (23/8)
Fisher's exact test for biased strand distribution p-value = 1.08e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.50e-02
Rejected as consensus: Frequency below/above cutoff threshold.

AGGCCGCTCAGGCCCCTTGTCGGTCAAGTAGAGGCTCAGGCCAATACTGCAGCCCATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGGGCGCTCCCCACCCCCAACACCGCCCA‑GGCGGCCATGCTCGGCAGAGCGATCAGCAAGAACACCAGCGCCAGCTGCCACACTGGCAACGACGGCGCGGCAAATACCCCGACCACCGCCACGGCCATCAACCAGACC  >  KT2440/2769942‑2770205
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aGGCCGCTCAGGCCCCTTGTCGGTCAAGTAGAGGCTCAGGCCAATACTGCAGCCCATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGGGCGCTc                                                                                                                                    <  3:139393/135‑1 (MQ=255)
aGGCCGCTCAGGCCCCTTGTCGGGCAAGTAGAGGCTCAGGCCAATACTGCAGCCCATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGGGCGCTc                                                                                                                                    <  4:201136/135‑1 (MQ=255)
    cGCTCAGGCCCCTTGTCGGTCAAGTAGAGGCTCAGGCCAATACTGCAGCCCATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCCGCCCCCGGGCGCGccccc                                                                                                                                >  2:193570/1‑134 (MQ=255)
          ggCCCCTTTTCCGTCAAGTAGAGTCTCAGGCCAATACTGCAGCCCATCCCGATATCAACTAAACCACCCCCAACACTTGGTAGAACACCAGCCAACTCCCCGGTGCCTCCAGCCACCGGGCGCACCCCACCCCCa                                                                                                                          >  6:52744/1‑135 (MQ=255)
             cccTTGTCGGTCAAGTAGAGGCTCAGGCCAATACTGCAGCCCATGCCGATATCAACAAAACCCCCGCCAACCCTTGGTTGAACACCCGCAACCGCCCCCGGGCCGGCCGCCCCCCGGCGCGcccccccccccccc                                                                                                                       >  5:183194/1‑131 (MQ=255)
              ccTTGTCGGTCAAGTAGAGGCTCAGGCCAATACTGCAGCCCATGCCGATATCAACAAAACCCCCCCCAACACTTGGTTGAACACCCGCAACCGCCCCCGTGACTGCAGCCCCCCAGCGCACCCCACCCCCCacac                                                                                                                      >  1:160546/1‑135 (MQ=255)
                              gagGCTCAGGCCAATACTGCAGCCCATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGGGCCTGCCGCCCCCGGGCGCGGGCCCCCCCCACCACCCCCCC‑GGCGGcccag                                                                                                     >  5:177870/1‑132 (MQ=255)
                                        ccAATACTGCAGCCCATGCCGATATCAACAAAACCCCCGCCCACACTTGGTTGAACACCCGAAACCGCCCCGGTGCCTGCAGCCACCGCGCGCTCCCCCCCCCCCACACCCCCCA‑GGCGGCCCAGCTCGGCagac                                                                                           >  1:136507/1‑134 (MQ=255)
                                               tGCAGCCCATGCCGATATCAACAAAACCCCCGCCCACACTTGGTTGCACACCCGCAACCGCCCCGGTGCCTGCCGCCCCCGGGCGCGCCCCCCCCCCCCCACCCCCCC‑CGCGGCCCTGCGCGGCCGACCGCTcc                                                                                     >  4:99476/1‑133 (MQ=255)
                                               tGCAGCCCATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTCCAGCCACCCGGCGCACCCCCCCCCCCACACCGCCCA‑GGCCGCCCTGCTCCGCAGACCGCTCa                                                                                     >  8:153993/1‑134 (MQ=255)
                                                    cccATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCACCCGCCCCGGTGCCTGCCGCCACCGGGCGCGCCCCACCCCCCACACCCCCCA‑CGCGGCCATGCTCGGCAGAGCGATCAGCAAGa                                                                               >  3:130229/1‑135 (MQ=255)
                                                    cccATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGGGCGCGCCCCACCCCCAACACCCCCCC‑GGCCGCCAAGCTCGGCAGAGCGATCCGCAAgc                                                                               >  7:105042/1‑134 (MQ=255)
                                                    cccATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGCGCGCGCCCCACCCCCAACACCCCCCC‑CGCGGCCCAGCGCGGCAGAGCGCTCACCACGa                                                                               >  3:132829/1‑135 (MQ=255)
                                                    cccATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGCTGCCTGCAGCCACCGGGCGCGGCCCCCCCCCCCCCCCCCCCA‑CGCGGCCAGGCTCGGCAGAGCCAACAGCAAGa                                                                               >  7:82257/1‑135 (MQ=255)
                                                    cccATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCCGTGCCAGCAGCCACCCGCCGCGCCCCCCCCCCACCCCCCCCCACGCCGGCCA‑GCACGGCCGCGCCAGCAGCaac                                                                                >  5:157560/1‑133 (MQ=255)
                                                         gCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGGGCGCGCCCCCCCCCCACCCCCCCCCA‑CGCCGCCATGCTCGGCCGCCCCCTCCGCAAGAACAcc                                                                          >  1:47697/1‑135 (MQ=255)
                                                            gATACCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCACCCGCCCCGGTGCCTGCAGCCACCGGGCGCTCCCCACCCCCAACACCGCCCA‑GGCGGCCATGCTCGGCAGAGCGATCAGCAAGAACACCAgc                                                                       <  1:193570/135‑1 (MQ=255)
                                                                      aacccccccccAAAAGTTGGTTGAACACCCGCACCCGCCCCGGTGCCTGCCGCCCCGGGGCGCTCCCCACCCCCAACACCGCCCA‑GGCGGCCATGCTCGGCAGAGCTATCAGCAAGAACACCAGCGCCAGCTGcc                                                             <  6:158745/132‑1 (MQ=255)
                                                                      aaaCCCCCGCCAACACTTGGTTGAACACCCGCACCCGCCCCGGTGCCTGCAGCCACCGGGCGCTCCCCACCCCCAACACCGCCCA‑GGCGGCCATGCTCGGCAGAGCGATCAGCAAGAACACCAGCGCCAGCTGcc                                                             <  3:71403/135‑1 (MQ=255)
                                                                          ccccGCCAAAAAATGGATGAACACCCGCAACCGCCCCCGTGCCAGAACCCACCGGGCGCGACCCCCCCCCAACCCCCCCAA‑GGCCGCCCTGCAACGCAGCGCGAACAGCAATAAAACCCGCCACCGCTGcccc                                                           >  6:70833/1‑131 (MQ=255)
                                                                               ccAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGGGCGCTCCCCACCCCCAACCCCGCCCA‑CGCGGCCATGCTCCGCAGAGCGAACAGCAAGAACACCAGCGCCAGCTGCCACACTGGCa                                                    >  8:158761/1‑135 (MQ=255)
                                                                                 aaCACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGGGCGCGCCCCCCCCCCCCCCCCGCCCC‑CGCGGCCAAGCTCCGCAGCGCGATCCGCAACAACACCCGCGCCCGCATCCACACGGGCacc                                                  >  6:116981/1‑133 (MQ=255)
                                                                                           tGAACACCCGCAACCGCCCCGGTGCCTGCAGCCCCCGGGCGCTCCCCACCCCCCACACCGCCCA‑GGCGGCCATGCTCGGCCGAGCGATCAGCAAGAACACCAGCGCCAGCTGCCACACAGGCCACGACGGcgcg                                         >  7:131493/1‑134 (MQ=255)
                                                                                           tGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGGGCGCGCCCCACCCCCAACCCCGCCCC‑GGCGGCCATTCTCGGCAGAGCGATCAGCAAGAACCCCAGCGCCAGCTGCCCCACTGGCCACGACGGCGCgg                                        >  6:14308/1‑135 (MQ=255)
                                                                                           tGAACACCCGCAACCGCCACGGTGCCTGCAGCCACCGGGCGCTCCCCACCCCCAACACCGCCCC‑CGCGGCCATGCACGGCAGAGCGATCAGCAAGAACACCCGCCCCCGCGGCCCCACTGGCAACCCCGGcgcgc                                        >  6:19522/1‑134 (MQ=255)
                                                                                                     aacccGCCCGGGTGCCTGCAGCAACGGGGCGCTCCCCACCCCAAACACCGCCCA‑GGCGGCCATGCTGGGATGAGCTATAAGCAATAACACCAGCGCCAGCTGCCACACTGGCAACGACGGCGCGGCAAATAcccc                              <  2:160546/132‑1 (MQ=255)
                                                                                                               ggTGCCTGCAGCCACCGGGCGCGGCCCCCCCCCCACACCGCCCA‑GGCGGCCAAGCTACGCCGAGCGCTCATCAAGCACACCACCGCCCCCTGCCCCCCAGGCAACCACGGCGGGGCAAAAAACCCGCcccccccc                    >  6:16975/1‑135 (MQ=255)
                                                                                                                        aGCCACCGGGCGCTCCCCACCCCCAACACCGGCCA‑GGCGGCCATGCTCGGCAGAGCGATCAGCAAGAACACCAGCGCCAGCTGCCACACTGGCAACGACGGCGCGGCAAATACCCCGACCCCCGCCACGGCCAt            >  2:153273/1‑134 (MQ=255)
                                                                                                                         gCCACCGGGCGCTCCCCCCCCCCCACACCGCCCA‑GGCGGCCATGCTCGGCAGAGCGAGCAGCAAGAACACCCGCGCCAGCTGCCACCCTGGCACCGCCGGCGCGGCAAATACCCCGCCCACCGCCCCGGCCATCa          >  8:169057/1‑135 (MQ=255)
                                                                                                                         gCCACCGGGCGCGCCCCACCCCCAACACCGCCCC‑GGCGGCCTTGCTCGGCAGAGCGATCAGCAAGACCACCAGCGCCAGCTGCCACACTGGCAACGACGGCGCGGCAAATACCCCGACCACCGCCACGGCCATCa          <  1:201733/135‑1 (MQ=255)
                                                                                                                                 gcgcTCCCCACCCCCAACACCGCCCA‑GGCGGCCATGCTCGGCAGAGCGATCAGCAAGAACACCAGCGCCAGCTGCCACACTGGCAACGACGGCGCGGCAAATACCCCGACCACCGCCACGGCCATCAACCAGAcc  <  7:116955/135‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                   
AGGCCGCTCAGGCCCCTTGTCGGTCAAGTAGAGGCTCAGGCCAATACTGCAGCCCATGCCGATATCAACAAAACCCCCGCCAACACTTGGTTGAACACCCGCAACCGCCCCGGTGCCTGCAGCCACCGGGCGCTCCCCACCCCCAACACCGCCCA‑GGCGGCCATGCTCGGCAGAGCGATCAGCAAGAACACCAGCGCCAGCTGCCACACTGGCAACGACGGCGCGGCAAATACCCCGACCACCGCCACGGCCATCAACCAGACC  >  KT2440/2769942‑2770205

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑