Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913357,8750AT40.9% 57.5 / 22.1 45N272K (AAT→AAA) cynRtranscriptional activator of cyn operon; autorepressor
Reads supporting (aligned to +/- strand):  ref base A (17/9);  new base T (0/18);  total (18/27)
Fisher's exact test for biased strand distribution p-value = 4.94e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAA  >  NC_000913/357727‑358020
                                                                                                                                                      |                                                                                                                                                  
tGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCCATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTAtt                                                                                                                                                  >  1:557711/1‑151 (MQ=255)
 gAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTAttt                                                                                                                                                 >  1:322286/1‑151 (MQ=255)
   aCTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTAttttt                                                                                                                                               >  1:878994/1‑151 (MQ=255)
    cTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTc                                                                                                                                              >  1:68170/1‑151 (MQ=255)
         aGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTccgcc                                                                                                                                          <  2:75357/150‑1 (MQ=255)
           gCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCcgccgc                                                                                                                                        >  2:914081/1‑150 (MQ=255)
            ccTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaa                                                                                                                                      <  2:486288/151‑1 (MQ=255)
               gATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaaca                                                                                                                                    <  2:189099/150‑1 (MQ=255)
                 tAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACaaa                                                                                                                                  >  2:534877/1‑150 (MQ=255)
                  aaGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAc                                                                                                                                <  2:136044/151‑1 (MQ=255)
                   aGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAcc                                                                                                                               <  1:270440/151‑1 (MQ=255)
                      ttAGCGACTCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAA‑CCGCGCATTTATCCACCGCCATGTGCAAAAATCCCTTC‑TCGGCGGCTGTCTGCCAGGTATTTTTCCGCCGcaaca                                                                                                                                    <  1:1212673/142‑1 (MQ=17)
                      gTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgcc                                                                                                                            >  2:524818/1‑151 (MQ=255)
                       tAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgccg                                                                                                                           >  1:1164024/1‑151 (MQ=255)
                           gcATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTtct                                                                                                                       >  1:726784/1‑151 (MQ=255)
                                     aTTCCAGCCGCAAACCTGTGACAGCGGCTACCTTGATTCAATTCCGCCAACAA‑CCGCGCATTTATCCACCGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGGCAGCTCTTTTTCCGCCGCAACAAAACCGCCGTTCGCTCCatgcg                                                                                                              >  1:695910/1‑146 (MQ=21)
                                            ccccaccccTGTGTCAGCGGCCCCCGTTATTCTTCCCCACCAACAA‑CCGCGCATTTACCCAGCCCTTTGTACAAAAATGCGTTC‑GGGGCGCTTGTCGCCCAGTTTTTTTCCCCCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgg                                                                                                        <  2:788887/142‑1 (MQ=255)
                                            ccGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg                                                                                                      >  2:405301/1‑151 (MQ=255)
                                                  aCCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggggga                                                                                                   >  2:822801/1‑145 (MQ=255)
                                                       tgtCAGCGCCCACCGTGTTTCATTCCCGCCAACAC‑CCGCGCATTTATCCAACCCCATGTGAAAAAATGCCTGC‑GGGGCGGCTGTCTCCCAGCTATTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑aaa                                                                                            <  2:16814/149‑1 (MQ=255)
                                                          cAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAG‑aaaaa                                                                                          >  2:413865/1‑146 (MQ=255)
                                                           aGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGGAAAG‑AAAAAACtt                                                                                      >  2:447714/1‑151 (MQ=255)
                                                            gCGGCTCCCGTGTTTCATTCCCCCCAACAC‑CCGCGCATTTACCCACCCCCTTGTAAAAAAATCCCTGC‑GGGGCGGCTTTCTGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCt                                                                                       <  2:1013703/149‑1 (MQ=255)
                                                              ggCTCCCGTGATTCATTCCCGCCAACAC‑CCGCGCTTTTACCCACCGCCATGTGAAAAAATGCCTTC‑GGGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCt                                                                                       <  2:667242/147‑1 (MQ=25)
                                                              gcctcccttGATTCTTTCCCCCCAACAC‑CCGCCTATTTACCCAACGCCTTTTGAAAAAATGCCTCC‑GGGGCGCCTGTCTGCCGGCTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCt                                                                                       <  2:421223/139‑1 (MQ=255)
                                                                   ccGTCATTTTTTCCCCCCAACAC‑CCGCATGTTTAACCACCGCTGTGGGAAAAAGCTCCTCC‑GCGGCGGCGTTGGGCCAGTTTTTTGCCCGCCGAAAAAAATCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGc                                                                                 <  1:758410/148‑1 (MQ=255)
                                                                     gtgtTTCTTTTCCGCCACCAC‑CCGCGCTTTTATCCACCCCCAGGAGAAAAAAGCCCTCC‑GGGGCGTCTGTCTCCCGGTTTTTTTTCCGCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAg                                                                                  <  1:560189/145‑1 (MQ=255)
                                                                         ttCTTTCCCCCCAACAC‑CCGCGATTTTACCCACCGCCATGGGAAAAAATCCCTCC‑GGGGGGGTTGTCTCCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCa                                                                           <  2:222854/148‑1 (MQ=255)
                                                                         ttCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGAGGGAAAAAACCTTTAGGCCCgcc                                                                            >  2:97644/1‑146 (MQ=25)
                                                                         ttCATTCCCCCCAACAC‑CCGCGCTTTTACCCACCGCCATGTGCAAAAGGGCCTTC‑GCGGCGGCTTTCTGCCAGTTTTTTTCCCCCCCAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCAtg                                                                         <  1:709955/150‑1 (MQ=255)
                                                                         ttCATTCCCACCAACAC‑CCGCGCTTTTATCCACCCCCATGTCCAAAATTCCCTTC‑GCGGCGGCTGTCGGCCGGCTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCAt                                                                          <  2:169747/149‑1 (MQ=255)
                                                                          ttctttCCCCCAAAAACCCGCGCTTTTCCCCACCG‑CATTGGAAAAAAAGGCTTCGGGGGGGGCTGCCGCCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGt                                                                             <  2:1002531/143‑1 (MQ=255)
                                                                             ttcccGCCAACAC‑CCGCGAATTTACCCACCCCAATGTGAAAAAATGCTTCG‑GCGGCGGCTGTCTGCCGGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCAtgttg                                                                      <  2:1006975/146‑1 (MQ=255)
                                                                               cccccaaacac‑cCGCCCTTTTACCCACCCCCATGTCAAAAAATGCCTTG‑GGGCCGGCTTTCTGCCACCTTTTTTCCCGCCACAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTtgtgt                                                                   <  2:436982/144‑1 (MQ=255)
                                                                                                  tttACCAAACGCCATGTAAAAAAATCCCTCC‑GGGGCGGCTGTCTGCCAGCTTTTTTCCCCCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctgct                                                      <  2:1146828/145‑1 (MQ=255)
                                                                                                      cccaccccctggtaaaaaatTGCCTCC‑GCGGCGGCTTTCGCCCAGTTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAAt                                             <  2:951034/135‑1 (MQ=255)
                                                                                                       ccaccccctggtgAAAAAAT‑CCTTCGGGGGCGGTTTTCTCCAAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAAtg                                            <  2:1099466/140‑1 (MQ=255)
                                                                                                                 gtgAAAAAGCGCCTTC‑GCGGCGGCTGTCTGCCAGTTATTTTCCCGCCGCAAAAAAGCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGaa                                 <  2:1101774/151‑1 (MQ=255)
                                                                                                                    cAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAG‑GAAAAACATTTAACCCCCCTTGTTTTTTGGGAATCGCTGCTGGTGGCAAAGTGGGGAggg                                   >  2:604906/1‑146 (MQ=255)
                                                                                                                            ccTTC‑GCGGGGGCTGTCTCCCTGTTTTTTTTCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAAt                      <  1:273880/151‑1 (MQ=255)
                                                                                                                                  ggggcggcTGTCGGCCACCTATTTTCCCCCCCAAAAAAAGCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCt                 <  1:440339/149‑1 (MQ=255)
                                                                                                                                     gcggcTGTCTGCCAGTTTTTTTCCCGCCGAAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTcc               <  2:1043186/150‑1 (MQ=255)
                                                                                                                                        gcTTTCTCCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAg             <  2:468013/149‑1 (MQ=255)
                                                                                                                                                ccAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGGG‑AAAAAAATTTAAACCCGCCCTTTTTTGTGGGTATCGCTTCTGGGAACAATATGGAAAGGGGGGGGCGGGGGAGCAACGCCCGAACcgc       >  2:802250/1‑147 (MQ=255)
                                                                                                                                                   gCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAG‑AAAAAACTTTTAAACCCTCCTGTTTTGTGGGAATCGCTGCTGGTGACAAAGAGGGAAAGGGAGGGGGGGGGATCAAATCCCCAACCgcgccca  >  2:145155/1‑146 (MQ=255)
                                                                                                                                                      |                                                                                                                                                  
TGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAA‑CCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAA  >  NC_000913/357727‑358020

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑