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→AAAcynRtranscriptional 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

TGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAA  >  NC_000913/357727‑358020
                                                                                                                                                      |                                                                                                                                                  
tGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCCATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAtt                                                                                                                                                  >  1:557711/1‑151 (MQ=255)
 gAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttt                                                                                                                                                 >  1:322286/1‑151 (MQ=255)
   aCTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt                                                                                                                                               >  1:878994/1‑151 (MQ=255)
    cTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTc                                                                                                                                              >  1:68170/1‑151 (MQ=255)
         aGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgcc                                                                                                                                          <  2:75357/150‑1 (MQ=255)
           gCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCcgccgc                                                                                                                                        >  2:914081/1‑150 (MQ=255)
            ccTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaa                                                                                                                                      <  2:486288/151‑1 (MQ=255)
               gATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaaca                                                                                                                                    <  2:189099/150‑1 (MQ=255)
                 tAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACaaa                                                                                                                                  >  2:534877/1‑150 (MQ=255)
                  aaGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAc                                                                                                                                <  2:136044/151‑1 (MQ=255)
                   aGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAcc                                                                                                                               <  1:270440/151‑1 (MQ=255)
                      ttAGCGACTCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTTATCCACCGCCATGTGCAAAAATCCCTTCTCGGCGGCTGTCTGCCAGGTATTTTTCCGCCGcaaca                                                                                                                                    <  1:1212673/142‑1 (MQ=17)
                      gTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgcc                                                                                                                            >  2:524818/1‑151 (MQ=255)
                       tAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgccg                                                                                                                           >  1:1164024/1‑151 (MQ=255)
                           gcATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTtct                                                                                                                       >  1:726784/1‑151 (MQ=255)
                                     aTTCCAGCCGCAAACCTGTGACAGCGGCTACCTTGATTCAATTCCGCCAACAACCGCGCATTTATCCACCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGGCAGCTCTTTTTCCGCCGCAACAAAACCGCCGTTCGCTCCatgcg                                                                                                              >  1:695910/1‑146 (MQ=21)
                                            ccccaccccTGTGTCAGCGGCCCCCGTTATTCTTCCCCACCAACAACCGCGCATTTACCCAGCCCTTTGTACAAAAATGCGTTCGGGGCGCTTGTCGCCCAGTTTTTTTCCCCCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgg                                                                                                        <  2:788887/142‑1 (MQ=255)
                                            ccGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg                                                                                                      >  2:405301/1‑151 (MQ=255)
                                                  aCCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggggga                                                                                                   >  2:822801/1‑145 (MQ=255)
                                                       tgtCAGCGCCCACCGTGTTTCATTCCCGCCAACACCCGCGCATTTATCCAACCCCATGTGAAAAAATGCCTGCGGGGCGGCTGTCTCCCAGCTATTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGaaa                                                                                            <  2:16814/149‑1 (MQ=255)
                                                          cAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAGaaaaa                                                                                          >  2:413865/1‑146 (MQ=255)
                                                           aGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGGAAAGAAAAAACtt                                                                                      >  2:447714/1‑151 (MQ=255)
                                                            gCGGCTCCCGTGTTTCATTCCCCCCAACACCCGCGCATTTACCCACCCCCTTGTAAAAAAATCCCTGCGGGGCGGCTTTCTGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCt                                                                                       <  2:1013703/149‑1 (MQ=255)
                                                              ggCTCCCGTGATTCATTCCCGCCAACACCCGCGCTTTTACCCACCGCCATGTGAAAAAATGCCTTCGGGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCt                                                                                       <  2:667242/147‑1 (MQ=25)
                                                              gcctcccttGATTCTTTCCCCCCAACACCCGCCTATTTACCCAACGCCTTTTGAAAAAATGCCTCCGGGGCGCCTGTCTGCCGGCTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCt                                                                                       <  2:421223/139‑1 (MQ=255)
                                                                   ccGTCATTTTTTCCCCCCAACACCCGCATGTTTAACCACCGCTGTGGGAAAAAGCTCCTCCGCGGCGGCGTTGGGCCAGTTTTTTGCCCGCCGAAAAAAATCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGc                                                                                 <  1:758410/148‑1 (MQ=255)
                                                                     gtgtTTCTTTTCCGCCACCACCCGCGCTTTTATCCACCCCCAGGAGAAAAAAGCCCTCCGGGGCGTCTGTCTCCCGGTTTTTTTTCCGCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg                                                                                  <  1:560189/145‑1 (MQ=255)
                                                                         ttCTTTCCCCCCAACACCCGCGATTTTACCCACCGCCATGGGAAAAAATCCCTCCGGGGGGGTTGTCTCCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa                                                                           <  2:222854/148‑1 (MQ=255)
                                                                         ttCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGAGGGAAAAAACCTTTAGGCCCgcc                                                                            >  2:97644/1‑146 (MQ=25)
                                                                         ttCATTCCCCCCAACACCCGCGCTTTTACCCACCGCCATGTGCAAAAGGGCCTTCGCGGCGGCTTTCTGCCAGTTTTTTTCCCCCCCAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtg                                                                         <  1:709955/150‑1 (MQ=255)
                                                                         ttCATTCCCACCAACACCCGCGCTTTTATCCACCCCCATGTCCAAAATTCCCTTCGCGGCGGCTGTCGGCCGGCTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAt                                                                          <  2:169747/149‑1 (MQ=255)
                                                                          ttctttCCCCCAAAAACCCGCGCTTTTCCCCACCGCATTGGAAAAAAAGGCTTCGGGGGGGGCTGCCGCCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGt                                                                             <  2:1002531/143‑1 (MQ=255)
                                                                             ttcccGCCAACACCCGCGAATTTACCCACCCCAATGTGAAAAAATGCTTCGGCGGCGGCTGTCTGCCGGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttg                                                                      <  2:1006975/146‑1 (MQ=255)
                                                                               cccccaaacaccCGCCCTTTTACCCACCCCCATGTCAAAAAATGCCTTGGGGCCGGCTTTCTGCCACCTTTTTTCCCGCCACAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTtgtgt                                                                   <  2:436982/144‑1 (MQ=255)
                                                                                                  tttACCAAACGCCATGTAAAAAAATCCCTCCGGGGCGGCTGTCTGCCAGCTTTTTTCCCCCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctgct                                                      <  2:1146828/145‑1 (MQ=255)
                                                                                                      cccaccccctggtaaaaaatTGCCTCCGCGGCGGCTTTCGCCCAGTTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAAt                                             <  2:951034/135‑1 (MQ=255)
                                                                                                       ccaccccctggtgAAAAAATCCTTCGGGGGCGGTTTTCTCCAAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAAtg                                            <  2:1099466/140‑1 (MQ=255)
                                                                                                                 gtgAAAAAGCGCCTTCGCGGCGGCTGTCTGCCAGTTATTTTCCCGCCGCAAAAAAGCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGaa                                 <  2:1101774/151‑1 (MQ=255)
                                                                                                                    cAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAGGAAAAACATTTAACCCCCCTTGTTTTTTGGGAATCGCTGCTGGTGGCAAAGTGGGGAggg                                   >  2:604906/1‑146 (MQ=255)
                                                                                                                            ccTTCGCGGGGGCTGTCTCCCTGTTTTTTTTCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAAt                      <  1:273880/151‑1 (MQ=255)
                                                                                                                                  ggggcggcTGTCGGCCACCTATTTTCCCCCCCAAAAAAAGCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCt                 <  1:440339/149‑1 (MQ=255)
                                                                                                                                     gcggcTGTCTGCCAGTTTTTTTCCCGCCGAAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTcc               <  2:1043186/150‑1 (MQ=255)
                                                                                                                                        gcTTTCTCCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAg             <  2:468013/149‑1 (MQ=255)
                                                                                                                                                ccAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGGGAAAAAAATTTAAACCCGCCCTTTTTTGTGGGTATCGCTTCTGGGAACAATATGGAAAGGGGGGGGCGGGGGAGCAACGCCCGAACcgc       >  2:802250/1‑147 (MQ=255)
                                                                                                                                                   gCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAGAAAAAACTTTTAAACCCTCCTGTTTTGTGGGAATCGCTGCTGGTGACAAAGAGGGAAAGGGAGGGGGGGGGATCAAATCCCCAACCgcgccca  >  2:145155/1‑146 (MQ=255)
                                                                                                                                                      |                                                                                                                                                  
TGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAA  >  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: