Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913357,8750AT45.2% 29.3 / 16.3 32N272K (AAT→AAA) cynRtranscriptional activator of cyn operon; autorepressor
Reads supporting (aligned to +/- strand):  ref base A (10/7);  new base T (0/14);  total (11/21)
Fisher's exact test for biased strand distribution p-value = 4.61e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGA  >  NC_000913/357736‑358010
                                                                                                                                           |                                                                                                                                        
aGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgccg                                                                                                                               <  1:150338/151‑1 (MQ=255)
 ggCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCcgccgc                                                                                                                              >  1:694461/1‑151 (MQ=255)
 ggCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCcgccgc                                                                                                                              >  2:891533/1‑151 (MQ=255)
   ccTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGca                                                                                                                             >  1:60873/1‑150 (MQ=255)
         aaGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAc                                                                                                                      >  1:497992/1‑151 (MQ=255)
          aGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAcc                                                                                                                     <  1:451938/151‑1 (MQ=255)
            cGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgc                                                                                                                   <  2:594183/151‑1 (MQ=255)
            cGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgc                                                                                                                   >  1:536046/1‑151 (MQ=255)
             gTAGCGCATCAGGCAATCCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgcc                                                                                                                  <  2:142299/151‑1 (MQ=255)
                 cgcATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTtc                                                                                                              >  1:130580/1‑151 (MQ=255)
                                  gCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCggg                                                                                             >  2:472613/1‑151 (MQ=255)
                                   cctcagggttgtgCCAGCGGCTACCGTTATTCATTCCCGCCAACACCCCCTCATTTATCCACCCCCATGACAAAAAATGCCTTCGGGGGGGCTCTCGGCCGTCTATTTTCCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg                                                                                            <  1:372606/142‑1 (MQ=255)
                                   ccGGAGACTTGTGTCGGCGCCTCCCGTGATTCTTTCCCGCCAACAACCGCGCTTTTACCCACCGCCATGGGCAAAAATGCCTCCGGGGGGGCTGTCTCCCGGCTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCgg                                                                                              <  2:727116/149‑1 (MQ=255)
                                   ccGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg                                                                                            >  1:238996/1‑151 (MQ=255)
                                   caccacccctttttCAGCGCATCCCGTTATTATTTCCCCCCAACACCCGCCCTTTTCCCCACCCCCTTGTGAAAAAACCCCCCCGCGGCGTCTCTCGGCCATTTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCgg                                                                                              <  2:54896/136‑1 (MQ=255)
                                              tgtCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTATTTTATCCCCAACAAGACCGCCGCTCCCTCCACTGGcggcggagggcac                                                                                       >  2:372544/1‑138 (MQ=11)
                                                   gcgcCTACCGTGTTTCTTTCCCCCAAACACCCGCGCTTTTACCAAACCCCTTGTGAAAAAATCCCTCCGGGGCGGCTGTCGCCCAGCTTTTTTTCCGCCCAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAaga‑g                                                                                     <  2:872968/141‑1 (MQ=255)
                                                     ggCTCCCGTGATTCATTCCCGCCAACACCCGCGCATTTACCCAACGCCATGTGAAAAAATCCCTCCGCGGCGGCTGTCTCCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTa                                                                          <  1:668988/150‑1 (MQ=25)
                                                     gcctcccGTGATTCATTCCCCCCAACACCCGCGCATTTACCCACCGCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTa                                                                          <  1:269100/145‑1 (MQ=255)
                                                         aCCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGAGCAAGA‑GAAATAGCTTTAAAccc                                                                     >  2:758188/1‑151 (MQ=255)
                                                          ccGGGATTCTTTCCCCCCACCACCCGCGCATTTACCCACCGCCATGTCAAAAAATCCCTCCGGGGCGGCTGTCTCCCGGCTATTTTCCCGCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCg                                                                    <  2:719175/151‑1 (MQ=255)
                                                                    ttccccccAACACCCACGATTTTACCAACCGCCTTGTACAAAAATGCCTGCGGGGGGTCTTCCGCCCAGCTTTTTTCCCCCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCAtgttg                                                            <  1:364364/143‑1 (MQ=255)
                                                                    ttcccGCAAACACCCGCGCTTTTACCCACCGCCTTGTGAAAAAAGGCTTTGGCGGCGGCTGTCTGCAAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCAtgtt                                                             <  1:140/145‑1 (MQ=255)
                                                                                 ccccgtttttACCCAACCCAATGTAAAAAAGGCCCTGCGGGGCGGTTGTCGCCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAAt                                                   <  2:821007/138‑1 (MQ=255)
                                                                                        tttcccaaaCGCCATGTGAAAAAATCCCTTCGCGGGGCTTTTCTGCCAGTTTTTTTCCCCCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTaa                                       <  2:445559/143‑1 (MQ=255)
                                                                                             ccAACCCCAGGTGAAAAAATGCCTTCGGGGCGGCTTTCTGCCAGTTTTTTTCCCGCCGAAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAAtg                                  <  1:838357/150‑1 (MQ=255)
                                                                                                aCGCAATGTGAAAAATTGCCTCCGGGGCGGCTGTCTGCGAGCTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGa                              <  1:372723/151‑1 (MQ=255)
                                                                                                           aaaaaTGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGAGAGGAAAAAATTTTAACCCCTCCAT‑TTTTGTGGGCATCGCTGCCGGGGACAATTTGGGAAGGGGAgggg                   >  2:52731/1‑148 (MQ=255)
                                                                                                            aacacgCCTGCGGGGGGGGTGTCTGCCTCTTTTTTGCCCTCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTgc                   <  2:218481/145‑1 (MQ=255)
                                                                                                            aaaaTGCCTTCGGGGGGCCTGTCTGCCAGTTTTTTTCCCGCCCAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTgcg                  <  2:527261/151‑1 (MQ=255)
                                                                                                                            gcttGTCTCCCACTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCa    <  1:891660/146‑1 (MQ=255)
                                                                                                                                     ccAGCTTTTTTCCCGCCCAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGa  <  1:949809/142‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                        
AGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGA‑GAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGA  >  NC_000913/357736‑358010

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: ‑