Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273645,9160TG60.0% 21.2 / 31.0 30T11P (ACT→CCT) ‡citEcitrate (pro‑3S)‑lyase subunit beta
Reads supporting (aligned to +/- strand):  ref base T (2/10);  new base G (18/0);  total (20/10)
Fisher's exact test for biased strand distribution p-value = 2.20e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.54e-05
Rejected as consensus: Frequency below/above cutoff threshold.

CATCAGCCGGGTAGATGAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGCCGGGATACCGCTGGCGCGTGCCAGCAGGGCTTCCA  >  NZ_CP009273/645835‑646004
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cATCAGCCGGGTAGATGAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGTTTTTCgtt                                                                                  >  1:213828/1‑90 (MQ=255)
  tCAGCCGGGTAGATGAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGCGGGGTTTTtgttgt                                                                                >  1:247152/1‑90 (MQ=255)
  tCAGCCGGGTAGATGAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGCGGGGTTTTCggttg                                                                                >  1:111109/1‑86 (MQ=255)
          gTAGATGAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTCGTTGTTGCAGCGa                                                                        >  1:14824/1‑90 (MQ=255)
                  aGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTTGTTGTTTCCGCGAAGCGGaaa                                                                >  2:1011155/1‑90 (MQ=255)
                  aGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTTGTTGTTGTGGCGGAGCGGgaa                                                                >  2:439164/1‑90 (MQ=255)
                   ggAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGCGAGTTTTTCGTTGTTGCAGCGAAACGGaaaa                                                               >  1:77924/1‑89 (MQ=255)
                     aGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTCGTTGTTTCAGCGAAACGGAAAACa                                                             >  1:380961/1‑90 (MQ=255)
                     aGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGCGGGGTTTTCCTTGTTGCAGCGAAGCGGgaaaaa                                                             >  1:865673/1‑87 (MQ=255)
                      gTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTTGTTGTTGCAGCGGAACGGGAAACaa                                                            >  2:214405/1‑89 (MQ=255)
                      gTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGCGGGGTTTTGGTTGTTTCCGCGAAGCGGAaataat                                                            >  2:483045/1‑90 (MQ=255)
                              ccATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAAtc                                                    <  2:850008/90‑1 (MQ=255)
                              ccATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTCGTTGTTGCAGCGAAACGGGAAACATTTGccaac                                                    >  2:331409/1‑86 (MQ=255)
                                aTCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTCGTTTTTGGAGGGAAGAGGGAAACATTGGGAAtccg                                                  >  1:420394/1‑89 (MQ=255)
                                        aTTGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGc                                          <  2:144439/90‑1 (MQ=255)
                                         ttGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCa                                         <  1:924946/90‑1 (MQ=255)
                                              aCCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGcc                                    <  2:493243/90‑1 (MQ=255)
                                                cAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTTGTTGTTTGAGCGAAACGGGAAAAAATGGGAAATCTCCCCAGGCTGAGGCgg                                  >  2:575814/1‑90 (MQ=255)
                                                cAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTTGTTGTTGCAGCGAAGCGGAAAAAATTTGGAATCCTCCCCTGGCGGAGGCgg                                  >  2:430317/1‑90 (MQ=255)
                                                cAGGCACAAACAACATGCTGCGGCGGGGGCGGGGTTTTTGTTTTTGCAGCGAAGCGGAAAACATTTGCAATCCCCCCCTGGCAGAGcccg                                  >  1:1100321/1‑88 (MQ=255)
                                                cAGGCACAAACAACATGCTGCGGCGGGGGCGGGGTTTACGTTGTTGTGGGGGAGGGGAAATCATTGGGGAACCTCCCCCGGCAGAGGCgg                                  >  2:196187/1‑90 (MQ=255)
                                                     acaaacaaCATGCTGCGGCGGGGGCGGGGTTTTCGTTGTTTCAGCGGAACGGGAATCATTGGCAATCCTCCCCTGGCAGAGGCGGGGTAc                             >  1:124159/1‑90 (MQ=255)
                                                            acaTGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGCCGGGATACCGCTGgc                      <  2:964165/90‑1 (MQ=255)
                                                            acaTGCTGCGGCGGGGGGGGGGTTTTCGTTTTTGCAGCGAAACGGGAAACATTTGCAATCCCCCCCCGGCAGAGCCGGGGGACCGCCggg                      >  1:969081/1‑89 (MQ=255)
                                                            acaTGCTGCGGCGGGGGCGAGGTTTTCGTTGTTGCAGCGAAGCGGGAAACATTTGCAAACCTCCCCTGGCAGAGGCGGGGTACCGCCGgc                      >  1:344170/1‑90 (MQ=255)
                                                              aTGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGCCGGGATACCGCTGgcgc                    <  1:989610/90‑1 (MQ=255)
                                                                       cggGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGCCGGGATACCGCTGGCGCGTGCcagca           <  2:1100321/90‑1 (MQ=255)
                                                                        gggTGCGCGTTTTAAGTTGTTGAAGCGAAGCGGAAATCTTTGGCAATCCTCCCATGGCAGAGCCGGTATCCCGCTGGCGCGCGCcagcag          <  2:835003/90‑1 (MQ=255)
                                                                        gggTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGCCGGGATACCGCTGGCGCGTGCcagcag          <  2:865673/90‑1 (MQ=255)
                                                                                gTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGCCGGGATACCGCTGGCGCGTGCCAGCAGGGCTTCCa  <  2:532968/90‑1 (MQ=255)
                                                                                 |                                                                                        
CATCAGCCGGGTAGATGAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGCCGGGATACCGCTGGCGCGTGCCAGCAGGGCTTCCA  >  NZ_CP009273/645835‑646004

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑