Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24404,218,0620TA25.0% 72.2 / 11.5 48intergenic (‑547/+292)CJ019_03957/CJ019_03958hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (25/11);  new base A (0/12);  total (25/23)
Fisher's exact test for biased strand distribution p-value = 1.94e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

CAGCTTGCAGCTTACAGAAGACCTCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTAAAGGCTTATGAGCTAAAGACA  >  KT2440/4217929‑4218192
                                                                                                                                      |                                                                                                                                  
cAGCTTGCAGCTTACAGAAGACCTCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTa                                                                                                                                   >  3:178100/1‑135 (MQ=255)
   cTTGCAGCTTACAGAAGACCTCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAAc                                                                                                                                 >  6:265207/1‑134 (MQ=255)
         gCTTACAGAAGACCTCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGGGGGT‑AACAACCTCGCTCCCTTAAAAAAGACg                                                                                                                          <  4:45277/135‑1 (MQ=255)
                gaagaCCTCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCTGAt                                                                                                                   >  5:2302/1‑135 (MQ=255)
                gaagaCCTCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGAt                                                                                                                   >  5:221263/1‑135 (MQ=255)
                gaagaCCTCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGAt                                                                                                                   >  2:88595/1‑135 (MQ=255)
                       tCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGa                                                                                                             >  3:39568/1‑134 (MQ=255)
                       tCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGa                                                                                                             >  1:196008/1‑134 (MQ=255)
                       tCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGa                                                                                                             >  8:15819/1‑134 (MQ=255)
                         gAAATTCACACTTGTTGAACGATGGAGATTCCGTATGCCAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATaa                                                                                                          >  5:226667/1‑135 (MQ=255)
                         gAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGTCCAGATACGAGATaa                                                                                                          >  2:218259/1‑135 (MQ=255)
                         gAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATaa                                                                                                          >  4:244859/1‑135 (MQ=255)
                                        tgAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCgg                                                                                            >  8:211938/1‑134 (MQ=255)
                                              aTGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAAcc                                                                                     >  1:51518/1‑135 (MQ=255)
                                                        cGTATGCCAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGAAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGaaa                                                                            <  2:51518/134‑1 (MQ=255)
                                                               cAGTTCGTCGCCATATCAAACCAAACCTAACTGGCCCTACGCCTGGGGGCGGTG‑AAAAACCTCCCACCCCTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCt                                                                    <  8:34986/135‑1 (MQ=255)
                                                               cAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCATAAGCCGGGCGGCGGGT‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCt                                                                    <  2:58277/135‑1 (MQ=255)
                                                                 gATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAg                                                                  >  4:139538/1‑135 (MQ=255)
                                                                  aTCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAgg                                                                 <  4:39568/135‑1 (MQ=255)
                                                                     gtcgCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATACGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACATAGGTgc                                                              >  6:667/1‑134 (MQ=255)
                                                                     gtcgCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTgg                                                              >  8:75685/1‑135 (MQ=255)
                                                                          ccTATCAAACCAAACTTAATTGCCCCTACGCCGGGCGGCGGTG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCcag                                                         <  3:105916/135‑1 (MQ=255)
                                                                            tATCAATCCAAACGTAAATGCCCCTAACCCTGGCGGCGGGT‑AACAACCGCGCTCCCGTAACAACCACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCcagca                                                       <  5:101144/135‑1 (MQ=255)
                                                                               cAATCCAAACGTAAATGTCCCTCAGCCTGGCGGCGGGT‑AACAACCTCGCTCCCGAAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTg                                                    <  7:163841/135‑1 (MQ=255)
                                                                               cAATCCAAACGTAAATGACCCTAAGCCGGGCGGCGGGC‑AACAACCTCCCTCCCGAAACAAACACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTg                                                    <  4:27436/135‑1 (MQ=255)
                                                                               aaaaccAAACCTAATTGGCCCTCCGCCTGGCGGCGGGC‑AACAACCGCGCTCCCTAAACACCCACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTg                                                    <  1:109375/131‑1 (MQ=255)
                                                                                 aTCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGT‑AACAACCACGCTCCCGAAACAACGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCa                                                  <  5:126869/135‑1 (MQ=255)
                                                                                         gTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCa                                          >  7:204811/1‑135 (MQ=255)
                                                                                             ctGTCCCTCCCCCGGGCGGCGGGA‑AACAACCGCGCCCCCGAAACAACCACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGc                                      <  2:156893/134‑1 (MQ=255)
                                                                                               gTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTg                                    >  3:281773/1‑135 (MQ=255)
                                                                                                gcccTAACCCGGGCGGGGGGGAAACACCCCCCCCCCCGAAACAACCACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTg                                    <  8:204811/134‑1 (MQ=255)
                                                                                                 cccTACGCCGGGCGGCGGGC‑AACAACCTCGCCCCCGAAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGt                                  <  3:79770/135‑1 (MQ=255)
                                                                                                  cctccgCCGGGCGCGGGGT‑AACAACCGCGCTCCCGAAACAAACACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGtt                                 <  6:77306/130‑1 (MQ=255)
                                                                                                   cTACGCCGGGCGGCGGGG‑AACACCCTCCCTCCCGAAACAACCACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTg                                <  3:49200/135‑1 (MQ=255)
                                                                                                     aaGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGcc                              >  3:274140/1‑135 (MQ=255)
                                                                                                      aGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCa                             >  6:83140/1‑135 (MQ=255)
                                                                                                           ggcggcGGGT‑AACACCCTCGCGCCCGTACCAACGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACgtgt                        <  3:41460/135‑1 (MQ=255)
                                                                                                           ggcggcGGGC‑AACAACCTCGCTCCCGTAACAAACACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACgtgt                        <  6:167501/135‑1 (MQ=255)
                                                                                                             cggcggGG‑AACAACCGCGCACCCGAAACAAACACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACgtgt                        <  2:28331/133‑1 (MQ=255)
                                                                                                              ggcggGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTaaa                     >  1:56963/1‑135 (MQ=255)
                                                                                                               gcggGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTAAAg                    >  1:118570/1‑135 (MQ=255)
                                                                                                               gcggGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGAGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTAAAg                    >  8:132282/1‑135 (MQ=255)
                                                                                                                cggGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTAAAgg                   <  4:46465/135‑1 (MQ=255)
                                                                                                                             tCGCTCCCGTAACAACGACGGCCAGATACGGGATAAGCGGAGCGATGCGGGAAAAGCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGTTTGCCACGTGTAAAGGCTTATGAGCTaa       <  7:196293/135‑1 (MQ=255)
                                                                                                                             tCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTAAAGGCTTATGAGCTaa       <  2:26382/135‑1 (MQ=255)
                                                                                                                               gcccccGAAACAAACACGGCCAGATACGGGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTAAAGGCTTATGAGCTAAAg     <  8:61096/132‑1 (MQ=255)
                                                                                                                                   ccGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTAAAGGCTTATGAGCTAAAGACa  >  2:118186/1‑134 (MQ=255)
                                                                                                                                   ccGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTAAAGGCTTATGAGCTAAAGACa  >  4:103528/1‑134 (MQ=255)
                                                                                                                                      |                                                                                                                                  
CAGCTTGCAGCTTACAGAAGACCTCGAAATTCACACTTGTTGAACGATGGAGATTCCGTATGACAGATCGTCGCCCTATCAATCCAAACGTAAATGTCCCTAAGCCTGGCGGCGGGG‑AACAACCTCGCTCCCGTAACAAAGACGGCCAGATACGTGATAAGCGGAGCGATGCGGGAAAACCCCGCGGAAAATAAACCTAGGTGGCCCAGCAGTGCACCTGTGCATTGCTGGTTGCCACGTGTAAAGGCTTATGAGCTAAAGACA  >  KT2440/4217929‑4218192

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: ‑