Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913357,8420CA40.6% 38.3 / 14.1 32L283F (TTG→TTT) cynRtranscriptional activator of cyn operon; autorepressor
Reads supporting (aligned to +/- strand):  ref base C (8/11);  new base A (0/13);  total (8/24)
Fisher's exact test for biased strand distribution p-value = 1.04e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑CTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGG  >  NC_000913/357692‑357986
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cggcgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGc                                                                                                                                                    >  2:498776/1‑151 (MQ=40)
   cgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCaaa                                                                                                                                                 <  2:578029/151‑1 (MQ=40)
   cgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCaaa                                                                                                                                                 <  1:417558/151‑1 (MQ=40)
      gAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAt                                                                                                                                              <  2:17904/151‑1 (MQ=40)
        aCGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGc                                                                                                                                            >  2:72906/1‑151 (MQ=40)
            cTTATCCGCACTACGTAGAGCACTGAACTCGCAGGCCTGATAAGCGTAGCGCATCACGAGATTCCAGCAGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACCCCATGTGCAAAAATGCCTTc                                                                                                                                        >  2:268149/1‑151 (MQ=14)
                 ccGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCgc‑ggc                                                                                                                                  >  2:480276/1‑151 (MQ=255)
                 ccGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCgc‑ggc                                                                                                                                  <  1:362453/151‑1 (MQ=255)
                         cGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCt                                                                                                                          <  1:142898/151‑1 (MQ=255)
                             gatcACTGAACTCATAGGCCTGATAACCGTAGCGCATCTCGCACTTCCAGCCGCACTCCTGCGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCa                                                                                                                      <  2:401171/148‑1 (MQ=14)
                                           tAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑CTATTTTTccgcc                                                                                                       >  2:488419/1‑151 (MQ=255)
                                            aGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑CTATTTTTccgccg                                                                                                      <  2:640485/151‑1 (MQ=255)
                                             ggCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑CTATTTTTccgccg                                                                                                      <  2:588893/150‑1 (MQ=255)
                                                   aTAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑CTATTTTTCCGCCGCAACaaa                                                                                               <  1:226592/151‑1 (MQ=255)
                                                              gcATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCG‑TGATTCATTGCCGCCAACAACCGCGCATTCGTCCAACGCCATGTGCAAAAATGCCTTCGC‑AGCGGCTGTCTGCCAG‑CTATAGTTGCGCCGgaagaggcgcgcgaccc                                                                                     >  2:201886/1‑136 (MQ=14)
                                                                             aGCCGCAGTCTTGTGTAGGCGG‑TACCGTTTATTCATTCCCCCCCCAAACCGCGCTTTTCCCAACCGCTTTTTAAAAAAATCCCTTCGC‑GGCGGCTGTCCCCAAT‑TTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCg                                                                      <  1:70507/150‑1 (MQ=255)
                                                                                 ccagtcctcgctcggCGGCTAGCG‑TGATCCATTCCCCCCACCACCGGCGCTTTTACCAACCGCCTGGTGCAAAAAGGCGTTCGC‑GGCGTCTTTCGGCCGG‑CTTTTTTCCCCCCGAAAGAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCa                                                                 <  2:590597/137‑1 (MQ=255)
                                                                                      cttgtgTCAGGGCCTACCG‑TGATTCTTTCCCGCCAACAACCGCGCATTTACCCAGCGCCAGGTGAAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑TTATTTTCCCGCCGCAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAagag                                                             <  1:248212/148‑1 (MQ=21)
                                                                                      ccTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑CTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggggga                                                                >  1:474448/1‑144 (MQ=255)
                                                                                         gtgtCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑CTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGGGAGaaa                                                          >  2:218934/1‑150 (MQ=255)
                                                                                          tgtCGGCGGCTCCCG‑TGATTCATTCCCCCCACCACCCGCGCTTTTCCCCACCGCCTTGTGAAAAAATGCTTTCGG‑GGGGGCTGTCTGCCAG‑CTATTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt                                                         <  1:219062/150‑1 (MQ=255)
                                                                                           gtCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑CTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAGaaaa                                                         >  1:323489/1‑148 (MQ=255)
                                                                                            ccgcggccccccG‑TAATTCATTCCCCCCACCACCCCCCCTTTTACCCACCCCCAGGTCAAAAAATCCCTCGGG‑GGCGGCGGTCTGCAAG‑TTTTTTTCCCGCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAagag                                                             <  2:686003/134‑1 (MQ=255)
                                                                                                cgtctcccG‑TGTTTCTTTCCCCCCAACACCCGCGTGTTTACCCACCCCCTTGTAAAAAAATCCCGCCGC‑GGGGGCTTTCCGCCTG‑TTTTTTTCCCGCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAaga                                                              <  2:92383/133‑1 (MQ=255)
                                                                                                       ccttgtttCATTTCCCCCAACACCCGCCCTTTTACCCACCGCCATGGGAAAAAATCCCTTCGC‑GGCGGCT‑TCCTCCAGTCGATTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGccc                                             <  2:620218/144‑1 (MQ=255)
                                                                                                       ccgtttttCTTTCCCGCAACCACCCGCCCATTTCTCCACCGCTGTGAGAAAAAAT‑CCCTCGCGGGGGGTTGTCTGCAAT‑CTTTTTTCCCGCCGAAAAAAATCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCtt                                                    <  2:678637/137‑1 (MQ=255)
                                                                                                                   cccGCCCACACCCGCTCTTTTCCCCACCTCCATGTCCAAAATGGCCTTCGC‑TGCGGCTGCCCGCCGT‑CTATTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttgt                                   <  1:201934/147‑1 (MQ=255)
                                                                                                                    cccccAACACCCGCGCTTTTACCCAACGCCTTGTGAAAAAATGCTTTCGC‑GGCGGTTGTCTCCCAG‑CTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTgg                               <  1:206357/148‑1 (MQ=255)
                                                                                                                    ccGCCAACACCCGCGCTTTTACCCAACGCCTTGTGAAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑TTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTgg                               <  1:77219/151‑1 (MQ=255)
                                                                                                                     cGCCACCACCCGCGCTTTCACCCACCCCCGTGGGAAAAAATGCCGCCGC‑GGCGGCTGCCTGCCAT‑TTATTTTTCCGCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGc                              <  2:81075/151‑1 (MQ=255)
                                                                                                                                        acccACCGCCATTTGAAAAAATCCCTTCGG‑GGCGGTTGTCTGCAAG‑CTTTTTTCCCGCCAAAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACa             <  2:283478/147‑1 (MQ=255)
                                                                                                                                            accccaaTGTGAAAAAATCCCTTCGC‑GGCGCCTGTCGCCAAG‑CTATTTTCCCGCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTgg       <  1:157019/145‑1 (MQ=255)
                                                                                                                                                 cATGTGAAAAAATGCCTCCGC‑GGCGGCTGTCTGCCAG‑CTATTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAgg  <  1:73266/151‑1 (MQ=255)
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CGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCG‑TGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAG‑CTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGG  >  NC_000913/357692‑357986

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑