Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*REL6062,631,7720AC30.2% 87.7 / 11.5 43intergenic (‑267/‑141)rpoE/nadBRNA polymerase, sigma 24 (sigma E) factor/L‑aspartate oxidase
Reads supporting (aligned to +/- strand):  ref base A (23/7);  new base C (0/13);  total (23/20)
Fisher's exact test for biased strand distribution p-value = 2.12e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

ATCTGTGTAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACAAATATTAAAA  >  REL606/2631698‑2631842
                                                                          |                                                                      
aTCTGTGTAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTccac                                                                       >  1:106868/1‑76 (MQ=255)
aTCTGTGTAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTccac                                                                       >  1:968658/1‑76 (MQ=255)
aTCTGTGTAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTccac                                                                       >  1:106853/1‑76 (MQ=255)
   tgtgTAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCAccag                                                                    <  2:306871/76‑1 (MQ=255)
    gtgtAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCAccagc                                                                   >  2:1431253/1‑76 (MQ=255)
    gtgtAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCAccagc                                                                   >  1:1488168/1‑76 (MQ=255)
     tgtAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCAccagcc                                                                  <  1:808498/76‑1 (MQ=255)
      gtAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCAccagcca                                                                 <  2:374000/76‑1 (MQ=255)
       tAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCAccagccag                                                                >  1:283052/1‑76 (MQ=255)
         gAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCCCCACCTAATCCCCCCCCAGCCAGTa                                                              <  2:544507/76‑1 (MQ=255)
           aaTGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAAc                                                            >  1:1151894/1‑76 (MQ=255)
             tGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCCCCTAATCCTCCCCCAGCCAGTAACtt                                                          <  2:1836922/76‑1 (MQ=255)
              gCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTtc                                                         >  1:1417560/1‑76 (MQ=255)
                   tttAACTGCCGGAAGATTACCCCAACGGCCTTTTTATTTCACCACCTAATCCCCCCCCAGCCAGTAACTTCTCttt                                                    <  2:359433/76‑1 (MQ=255)
                     taccTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCCCCCCCAGCCAGTAACTTCTCttttt                                                  <  1:292946/73‑1 (MQ=255)
                     tAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCttttt                                                  <  2:1890592/76‑1 (MQ=255)
                      aaCTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTtc                                                 >  1:1730750/1‑76 (MQ=255)
                        cTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTtctc                                               >  1:1098773/1‑76 (MQ=255)
                         tGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCCCCACCAGCCAGTAACTTCTCTTTTTCTcg                                              <  1:1839391/76‑1 (MQ=255)
                         tGCCCGAAGAGGAAACCCACGGCCCTTTTTTTTTTCCACCCAAAACTCCCCCCCCCCGCAACTTCTCTTTTtttct                                              >  2:1704661/1‑75 (MQ=255)
                             tGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTcgccgc                                          >  2:449359/1‑76 (MQ=255)
                             tGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTcgccgc                                          >  2:989917/1‑76 (MQ=255)
                                agagTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCt                                       <  1:1339978/76‑1 (MQ=255)
                                     caCCCACCGGCCTTTTTATTCCCCCCCCTAATCCCCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTc                                  <  2:456562/75‑1 (MQ=255)
                                       cccAACGGCCTTTTTATTTCCCCACCTAACCCTCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAg                                <  1:330025/76‑1 (MQ=255)
                                       cccAACGGCCTTTTTATTCCCCCACCTAACCCCCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAg                                <  2:1710936/76‑1 (MQ=255)
                                          aaCGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCgt                             >  2:410148/1‑76 (MQ=255)
                                          aaCGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCgg                             >  1:1185596/1‑75 (MQ=255)
                                           aCGGCCTTTTTATTTCCCCCCCTAACCCCCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCgtg                            <  2:1488168/76‑1 (MQ=255)
                                             ggCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGtt                          >  1:788485/1‑76 (MQ=255)
                                              ccttttttATTTCCCCCCCCAACCCCCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGttt                         <  2:407572/73‑1 (MQ=255)
                                               ccTTTTTATTTCACCACCTAACCCCCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTa                        <  2:250010/76‑1 (MQ=255)
                                                   tttATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCa                    >  1:379036/1‑76 (MQ=255)
                                                   tttATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCa                    >  2:1374928/1‑76 (MQ=255)
                                                     tATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACt                  >  2:1833141/1‑76 (MQ=255)
                                                     tATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACt                  >  1:1470857/1‑76 (MQ=255)
                                                     tATTCCCCCACCTAACCCCCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACt                  <  2:744960/76‑1 (MQ=255)
                                                        ttCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTa               >  1:6370/1‑76 (MQ=255)
                                                          caccacCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCAACTGTAAc             >  2:905653/1‑76 (MQ=255)
                                                            ccaccTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACaa           >  1:993/1‑76 (MQ=255)
                                                             ccccTAACCCCCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACaaa          <  1:848782/74‑1 (MQ=255)
                                                              cccTAACCCCCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACAAat         <  1:571897/75‑1 (MQ=255)
                                                              cccTAACCCCCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACAAat         <  1:1399430/75‑1 (MQ=255)
                                                                cTAACCCCCCCCCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACAAatat       <  1:1604693/76‑1 (MQ=255)
                                                                 tAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACAAATAtt      >  1:343865/1‑76 (MQ=255)
                                                                  aaTCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGCCAGCGAGCTTAGCCACTGTAACAAATATTa     >  2:536962/1‑76 (MQ=255)
                                                                   aTCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACAAATATTaa    >  2:1829568/1‑76 (MQ=255)
                                                                     cctccACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACAAATATTaaaa  >  1:919654/1‑76 (MQ=255)
                                                                          |                                                                      
ATCTGTGTAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGCCTTTTTATTTCACCACCTAATCCTCCACCAGCCAGTAACTTCTCTTTTTCTCGCCGCCCTGCGTCAGCGTGTTTAGCCACTGTAACAAATATTAAAA  >  REL606/2631698‑2631842

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑