Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*ACB1221,584,5390AC40.0% 20.3 / 11.0 35G137G (GGT→GGG) rhaS_1HTH‑type transcriptional activator RhaS
Reads supporting (aligned to +/- strand):  ref base A (17/4);  new base C (1/13);  total (18/17)
Fisher's exact test for biased strand distribution p-value = 2.01e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

CCCACGCAGCAGGCGGTAGAGAATCTCGCGGCGGAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCATGCGCAGGCCCAGGCTTGGGTTCTCGGGGCTGGCATCCAGCCTCACGGCG  >  ACB122/1584404‑1584671
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cccACGCAGCAGGCGGTAGAGAATCTCGCGGCGGAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACaaa                                                                                                                                      >  5:173040/1‑136 (MQ=255)
 ccACGCAGCAGGCGGTAGAGAATCTCGCGGCGGAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCCTCTGTCCTTTCCACCTACaaa                                                                                                                                      >  1:280184/1‑135 (MQ=255)
      cagcagGCGGTAGAGAATCTCGCGGCGGAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACgg                                                                                                                                >  4:333510/1‑136 (MQ=255)
      cagcagGCGGTAGAGAATCTCGCGGCGGAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACg                                                                                                                                 >  1:181240/1‑135 (MQ=255)
       agcagGCGGTAGAGAATCTCGCGGCGGAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGc                                                                                                                               >  7:220090/1‑136 (MQ=255)
                       tcgcgcgGCGCAACCGCGGCGCCATGTTTGCGATGGCGGGTGGGGGGTCCACCAGCCGCAGCACCCCCAGCAGGGCATCGAGTACCGCGGCATCTGTCCTTACCACAAACAACCCACGGCCGGAAGGTCGATTggg                                                                                                               <  4:177901/133‑1 (MQ=255)
                           gcggcgGAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTAcc                                                                                                           >  8:193760/1‑136 (MQ=255)
                           gcggcgGAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTAc                                                                                                            >  1:157362/1‑135 (MQ=255)
                             ggcggAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCa                                                                                                          >  2:177954/1‑135 (MQ=255)
                                ggAACCGGGGCGCCAGCTTGGCGAGGGCGCGTGGGGGGGCCCGCCCCCGACGCACCCGCAGCCGGGAAGCGAGTACGGCGCCTTCTGACATCCCCACATCCAAACCACGGCCGGAAGGTCGATTGGGTACCAGCAt                                                                                                      <  8:195041/136‑1 (MQ=255)
                                          cgcCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGct                                                                                             >  8:156974/1‑135 (MQ=255)
                                                 atggCGATGTCGCGAGGGGGGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGAAACCCGCCAGCTGACCTTCCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGa                                                                                     <  4:158210/133‑1 (MQ=255)
                                                      gATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGt                                                                                <  8:220090/136‑1 (MQ=255)
                                                           cgcgTGGGGGGCCCACCAGCCCCAGCAACCGCAGCCGGGCTGCGAGAAAGGCGGCATCTGTCCTTACCACAAAAAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCt                                                                           <  5:308303/136‑1 (MQ=255)
                                                                  ggggtCCAGCCGCCGCACCACCCGCAGCAGGCCAGCGCGAACCGCGGAATCTGTCCTTCCCACAAACAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTcc                                                                    <  5:151295/133‑1 (MQ=255)
                                                                  ggggtCCAGAACCCTCAGCAACCGCAGCTGGGATGCTAGTACCTCTTCAGTTGCCCTTACAACAAAAAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTcc                                                                    <  4:246390/133‑1 (MQ=255)
                                                                  ggTGCCCAGCCGCCGCAGCACCCGCAGCAGGGATCCGATTACCGCGGAATCGGCCATAACAAAAAAAAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTcc                                                                    <  6:162086/136‑1 (MQ=255)
                                                                  ggTGCCCACCAGCCGCACCAACCGCAGCAGGGCATCTAGAAACGCGCCATCTGACCTTACCACAAACAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTcc                                                                    <  7:81461/136‑1 (MQ=255)
                                                                   gtgacaagcaccCCCAGCAACCGCAGCAGGGCTGCGAGTAACGCGGCATCTGACCTTTCCACATACAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTcc                                                                    <  2:181142/129‑1 (MQ=255)
                                                                       ccAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTTGCTGATCTccgccg                                                                >  1:316721/1‑135 (MQ=255)
                                                                       ccAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCgg                                                               >  8:112241/1‑136 (MQ=255)
                                                                        cagccgCCGCAGCACCCGCAGCAGGGAAGCGAGTACCGCGGCATGTGGCCTTTCCACAAACAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCgg                                                               <  2:181240/135‑1 (MQ=255)
                                                                         agcagcCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCggg                                                              >  1:181142/1‑135 (MQ=255)
                                                                         agcagcCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGAGCAGTTGGCTGATCTCCGCCGggt                                                             >  3:209786/1‑136 (MQ=255)
                                                                              ccGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGggtccagg                                                        >  8:227860/1‑136 (MQ=255)
                                                                                 cagcaACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGggtccaggtc                                                      >  6:117956/1‑135 (MQ=255)
                                                                                   gcaACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTggg                                                                                                               <  8:294508/76‑1 (MQ=255)
                                                                                   gcaACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTggg                                                                                                               >  7:294508/1‑76 (MQ=255)
                                                                                   ccaACCGCAGCAGGGCATCGAGCACCGCGGCATCTGTCCTTTCCACAAACAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCAt                                                   <  3:333510/135‑1 (MQ=255)
                                                                                     aagcGCAGCTGGGCATCGAGAACCGCGGCATCGTTCCTTCCCACAAACAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCATgc                                                 <  6:217398/133‑1 (MQ=255)
                                                                                         gcagccGGGCAGCCAGAACCGCGGCATCTGTCCTTCCCAAAAACAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCATGCGCa                                              <  2:53658/135‑1 (MQ=255)
                                                                                         gcagcaGGGCATCGAGTAACGCGGCATCTGTCCTTACCACAAACAACCCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCATGCGCa                                              <  2:29810/135‑1 (MQ=255)
                                                                                                   aTCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCATGCGCAGGCCCAGGCt                                    >  1:53658/1‑135 (MQ=255)
                                                                                                        gTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCATGCGCAGGCCCAGGCTTGGGtt                              >  7:339190/1‑136 (MQ=255)
                                                                                                             gccccATCTGCCCTGTCCCCCAACACCCCACGGCAGGCAGGTCGATTTGGTACCAGCAGTGGCCCGCTCTCGGCTATCAGTTGGCGGATCTCCGCCGGGTCCAGGTCCATGCGCAGGCCCAGGCTTGGGTTCTCgg                         <  7:127288/132‑1 (MQ=255)
                                                                                                                              cacaTACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCATGCGCAGGCCCAGGCTTGGGTTCTCGGGGCTGGCATCCAGCCTc        >  3:271174/1‑136 (MQ=255)
                                                                                                                                    cAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCCTGCGCAGGCCCAGGCTTGGGTTCTCGGGGCTGGCATCCAGCCTCACGgcg  >  4:89832/1‑136 (MQ=255)
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CCCACGCAGCAGGCGGTAGAGAATCTCGCGGCGGAACAGCGGCGCCAGCATTGCGATGTCGCGAGGGGTGTCCAGCAGCCGCAGCAACCGCAGCAGGGCATCGAGTAACGCGGCATCTGTCCTTTCCACATACAAACCACGGCCGGAAGGTCGATTGGGTACCAGCATTGGCCCGCTCTCGGCGATCAGTTGGCTGATCTCCGCCGGGTCCAGGTCCATGCGCAGGCCCAGGCTTGGGTTCTCGGGGCTGGCATCCAGCCTCACGGCG  >  ACB122/1584404‑1584671

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑