Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,799,1680CA22.2% 101.8 / 24.5 45intergenic (‑226/+58)pheS/pheMphenylalanine tRNA synthetase, alpha subunit/phenylalanyl‑tRNA synthetase operon leader peptide
Reads supporting (aligned to +/- strand):  ref base C (16/19);  new base A (4/6);  total (20/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.81e-01
Rejected as consensus: Frequency below/above cutoff threshold.

TGCTCGAAATTCTCACGTACTTAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCTTTTGGTACTCTTCAAAAGACCTTTATT  >  NC_000913/1799036‑1799311
                                                                                                                                    |                                                                                                                                               
tgCTCGAAATTCTCACGTACTTAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCtttttt                                                                                                                                   <  5:37607/147‑4 (MQ=38)
  cTCGAAATTCTCACGTACTTAAATACGCTCCGGTGTATCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCtttttttgta                                                                                                                               <  3:109071/149‑8 (MQ=255)
   tCGAAATTCTCACGTACTTAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCtttttttgt                                                                                                                                >  1:137758/1‑141 (MQ=38)
   tCGAAATTCTCACGTACTTAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCtttttttgt                                                                                                                                <  2:137758/147‑7 (MQ=38)
         ttCTCACGTACTTAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCtt                                                                                                                                       >  7:118977/1‑134 (MQ=255)
         ttCTCACGTACTTAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCtt                                                                                                                                       <  8:118977/134‑1 (MQ=255)
          tctcACGTACTTAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTcc                                                                                                                       >  3:22524/1‑149 (MQ=255)
              aCGTACTTAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGttt                                                                                                                   <  4:22524/149‑1 (MQ=255)
                    ttAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCttttt                                                                                                                                    <  2:70374/126‑3 (MQ=38)
                    ttAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCttttt                                                                                                                                    >  1:70374/1‑124 (MQ=38)
                            gCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAg                                                                                                                                   <  7:156212/119‑1 (MQ=255)
                            gCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAg                                                                                                                                   >  8:156212/1‑119 (MQ=255)
                            gCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTGTTCCGTTTCTCTTCTCACgcgc                                                                                                     >  1:198981/1‑149 (MQ=255)
                                      ctcCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGcctcct                                                                                            <  3:125484/148‑1 (MQ=255)
                                      ctcCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGcctcct                                                                                            <  1:148837/148‑1 (MQ=255)
                                      ctcCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTg                                                                                           >  4:125390/1‑149 (MQ=255)
                                              tGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAgg                                                                                                                                  <  2:82960/102‑1 (MQ=255)
                                              tGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAgg                                                                                                                                  >  1:82960/1‑102 (MQ=255)
                                                gCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCttttttt                                                                                                                                  <  2:192693/100‑5 (MQ=38)
                                                gCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCCAGTGGAGGCttttttt                                                                                                                                  >  1:192693/1‑96 (MQ=38)
                                                gCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGt                                                                                  <  7:130604/148‑1 (MQ=255)
                                                  cGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTcc                                                                                                                       <  8:144090/109‑1 (MQ=255)
                                                  cGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTcc                                                                                                                       >  7:144090/1‑109 (MQ=255)
                                                   gtgtCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCt                                                                               >  2:159260/1‑148 (MQ=255)
                                                   gtgtCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTa                                                                              <  3:125390/149‑1 (MQ=255)
                                                        cAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGt                                                                          >  4:72618/1‑148 (MQ=255)
                                                           tCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTaaa                                                                       >  1:119903/1‑148 (MQ=255)
                                                                              ccTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATagca                                                   <  6:150570/149‑1 (MQ=255)
                                                                                      gaCAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGcattcat                                           <  1:159260/149‑1 (MQ=255)
                                                                                           gCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGt                                                                                  >  5:35102/1‑105 (MQ=255)
                                                                                           gCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGt                                                                                  <  6:35102/105‑1 (MQ=255)
                                                                                           gCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCAttgctt                                      >  2:125975/1‑149 (MQ=255)
                                                                                           gCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCAttgctt                                      >  5:186661/1‑149 (MQ=255)
                                                                                           gCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCAttgctt                                      >  6:133551/1‑149 (MQ=255)
                                                                                            cTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATag                                                     <  8:32590/133‑1 (MQ=255)
                                                                                            cTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATag                                                     >  7:32590/1‑133 (MQ=255)
                                                                                             tttttATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCAttgcttgc                                    >  8:13635/1‑149 (MQ=255)
                                                                                                ttATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGt                                  <  2:198981/148‑1 (MQ=255)
                                                                                                      ttCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtt                            <  2:119903/148‑1 (MQ=255)
                                                                                                            aCGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCTTTTGGTAc                     <  1:125975/149‑1 (MQ=255)
                                                                                                                gcATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCTTTTGGTACTCtt                 <  3:72618/149‑1 (MQ=255)
                                                                                                                        aaaaaGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCTTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCTTTTGGTACTCTTCAAAAGAc         <  5:133551/149‑1 (MQ=255)
                                                                                                                        aaaaaGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATag                                                     >  2:62984/1‑105 (MQ=255)
                                                                                                                        aaaaaGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATag                                                     <  1:62984/105‑1 (MQ=255)
                                                                                                                               cTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCTTTTGGTACTCTTCAAAAGACCTTTAtt  <  3:7569/149‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                               
TGCTCGAAATTCTCACGTACTTAAATACGCTCCGGTTTCTCCGCGCTGGCCGTGTCCAGTCTGGCTGCGACAATTACACCTGATGAGACAGGCTTTTTATTTTTCAAAACGCGCATACAAAAAAAGCCTCCACTGGGAGGCTTTCAGGCGCTGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGTAAAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCTTTTGGTACTCTTCAAAAGACCTTTATT  >  NC_000913/1799036‑1799311

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑