Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913357,8800TC57.1% 7.9 / 32.9 28K271E (AAA→GAA) cynRtranscriptional activator of cyn operon; autorepressor
Reads supporting (aligned to +/- strand):  ref base T (8/4);  new base C (0/16);  total (8/20)
Fisher's exact test for biased strand distribution p-value = 1.59e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.51e-05

TAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGT  >  NC_000913/357735‑358026
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tAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgcc                                                                                                                                               >  2:488419/1‑151 (MQ=255)
 aGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgccg                                                                                                                                              <  2:640485/151‑1 (MQ=255)
  ggCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgccg                                                                                                                                              <  2:588893/150‑1 (MQ=255)
        aTAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACaaa                                                                                                                                       <  1:226592/151‑1 (MQ=255)
                   gcATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTGCCGCCAACAACCGCGCATTCGTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTATAGTTGCGCCGgaagaggcgcgcgaccc                                                                                                                             >  2:201886/1‑136 (MQ=14)
                                  aGCCGCAGTCTTGTGTAGGCGGTACCGTTTATTCATTCCCCCCCCAAACCGCGCTTTTCCCAACCGCTTTTTAAAAAAATCCCTTCGCGGCGGCTGTCCCCAATTTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCg                                                                                                              <  1:70507/150‑1 (MQ=255)
                                      ccagtcctcgctcggCGGCTAGCGTGATCCATTCCCCCCACCACCGGCGCTTTTACCAACCGCCTGGTGCAAAAAGGCGTTCGCGGCGTCTTTCGGCCGGCTTTTTTCCCCCCGAAAGAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCa                                                                                                         <  2:590597/137‑1 (MQ=255)
                                           cttgtgTCAGGGCCTACCGTGATTCTTTCCCGCCAACAACCGCGCATTTACCCAGCGCCAGGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGTTATTTTCCCGCCGCAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAagag                                                                                                     <  1:248212/148‑1 (MQ=21)
                                           ccTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggggga                                                                                                        >  1:474448/1‑144 (MQ=255)
                                              gtgtCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGGGAGaaa                                                                                                  >  2:218934/1‑150 (MQ=255)
                                               tgtCGGCGGCTCCCGTGATTCATTCCCCCCACCACCCGCGCTTTTCCCCACCGCCTTGTGAAAAAATGCTTTCGGGGGGGCTGTCTGCCAGCTATTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt                                                                                                 <  1:219062/150‑1 (MQ=255)
                                                gtCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAGaaaa                                                                                                 >  1:323489/1‑148 (MQ=255)
                                                 ccgcggccccccGTAATTCATTCCCCCCACCACCCCCCCTTTTACCCACCCCCAGGTCAAAAAATCCCTCGGGGGCGGCGGTCTGCAAGTTTTTTTCCCGCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAagag                                                                                                     <  2:686003/134‑1 (MQ=255)
                                                     cgtctcccGTGTTTCTTTCCCCCCAACACCCGCGTGTTTACCCACCCCCTTGTAAAAAAATCCCGCCGCGGGGGCTTTCCGCCTGTTTTTTTCCCGCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAaga                                                                                                      <  2:92383/133‑1 (MQ=255)
                                                            ccttgtttCATTTCCCCCAACACCCGCCCTTTTACCCACCGCCATGGGAAAAAATCCCTTCGCGGCGGCTTCCTCCAGTCGATTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGccc                                                                                     <  2:620218/144‑1 (MQ=255)
                                                            ccgtttttCTTTCCCGCAACCACCCGCCCATTTCTCCACCGCTGTGAGAAAAAATCCCTCGCGGGGGGTTGTCTGCAATCTTTTTTCCCGCCGAAAAAAATCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCtt                                                                                            <  2:678637/137‑1 (MQ=255)
                                                                        cccGCCCACACCCGCTCTTTTCCCCACCTCCATGTCCAAAATGGCCTTCGCTGCGGCTGCCCGCCGTCTATTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttgt                                                                           <  1:201934/147‑1 (MQ=255)
                                                                         cccccAACACCCGCGCTTTTACCCAACGCCTTGTGAAAAAATGCTTTCGCGGCGGTTGTCTCCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTgg                                                                       <  1:206357/148‑1 (MQ=255)
                                                                         ccGCCAACACCCGCGCTTTTACCCAACGCCTTGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTgg                                                                       <  1:77219/151‑1 (MQ=255)
                                                                          cGCCACCACCCGCGCTTTCACCCACCCCCGTGGGAAAAAATGCCGCCGCGGCGGCTGCCTGCCATTTATTTTTCCGCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGc                                                                      <  2:81075/151‑1 (MQ=255)
                                                                                             acccACCGCCATTTGAAAAAATCCCTTCGGGGCGGTTGTCTGCAAGCTTTTTTCCCGCCAAAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACa                                                     <  2:283478/147‑1 (MQ=255)
                                                                                                 accccaaTGTGAAAAAATCCCTTCGCGGCGCCTGTCGCCAAGCTATTTTCCCGCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTgg                                               <  1:157019/145‑1 (MQ=255)
                                                                                                      cATGTGAAAAAATGCCTCCGCGGCGGCTGTCTGCCAGCTATTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAgg                                          <  1:73266/151‑1 (MQ=255)
                                                                                                                            ggcggtTGTCGGCCAGTTTTTTTCCCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCa                          <  1:191949/146‑1 (MQ=255)
                                                                                                                             gcggcTGTGTCCGAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCa                          <  2:14563/145‑1 (MQ=255)
                                                                                                                                  tGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGCAGAGAAAAAACCTTTAACCCCCCCTGTTTTGTGGGGATCGCCGCTGGTGACAAATTGGGAAAGGGAGGGCGGCGGAACAACTcccaaa                 >  1:516302/1‑145 (MQ=255)
                                                                                                                                  tGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGAGAGAAAAAACTTTTAACCCCCCCTTTTGTGTGGGGATCGCTGCTGGTGACAAAATGGGAAGGGGAGGGGGGGGGATCAACTccccaa                 >  1:207012/1‑145 (MQ=255)
                                                                                                                                        ccAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGCGAGAAAAAAAATTAAACCCCCCCCTTTGTGGGGCGCTCGCTGCTGGGAAAAATGTGGGAAGGGAAGGGCGGGGGAGCAGCTCCCGaaaacc             >  2:40509/1‑143 (MQ=255)
                                                                                                                                              ttttttcCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAAtt      <  1:72917/147‑1 (MQ=255)
                                                                                                                                                 tttcCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGt  <  1:542088/150‑1 (MQ=255)
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TAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGT  >  NC_000913/357735‑358026

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: