Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273645,9160TG54.5% 8.7 / 12.5 11T11P (ACT→CCT) ‡citEcitrate (pro‑3S)‑lyase subunit beta
Reads supporting (aligned to +/- strand):  ref base T (0/5);  new base G (6/0);  total (6/5)
Fisher's exact test for biased strand distribution p-value = 2.16e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.28e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CATCAGCCGGGTAGATGAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGCCGGGATACCGCTGGCGCGTGCC  >  NZ_CP009273/645835‑645991
                                                                                 |                                                                           
cATCAGCCGGGTAGATGAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGCGGGGTTTATgtt                                                                     >  1:762244/1‑90 (MQ=255)
                gAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGa                                                     <  1:756329/90‑1 (MQ=255)
                   ggAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTCGTTGTTGCAGCGAAGCGGgaaa                                                  >  1:171580/1‑89 (MQ=255)
                        tGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTCGTTTTTTGAGGGAAACGGGAAACAttt                                             >  1:330746/1‑89 (MQ=255)
                                   gcgGCATTGGTACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTccc                                  <  1:714498/90‑1 (MQ=255)
                                         ttGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCa                            <  2:330746/90‑1 (MQ=255)
                                         ttGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCa                            <  2:762244/90‑1 (MQ=255)
                                              aCCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGcc                       <  2:215107/90‑1 (MQ=255)
                                                cAGGCACAAACAACATGCTGCGGCGGGTGGGGGGTTTATGTTGTTGCAGCGAAACGGGAAACATTGGCAATCCTCCCATGGCGGAGCCgg                     >  1:173242/1‑90 (MQ=255)
                                                cAGGCACAAACAACATGCTGCGGCGGGGGGGGGGTTTTTGTTTTTTTAGCGGAGCGGAAAACAATTGGGATCCTCCCCTGGGAGAGCCgg                     >  1:865982/1‑90 (MQ=255)
                                                                   gcggcgGGGGCGGGGTTTTTGTTGTTTCAGCGAAACGGGAAACATTGGCAATCCTCCCCTGGCAGAGGCGGGGTACCCCCGGcgcggggc  >  2:41279/1‑86 (MQ=255)
                                                                                 |                                                                           
CATCAGCCGGGTAGATGAAGGAGTTGCTGACCATCGCGGCATTGGCACCAGGCACAAACAACATGCTGCGGCGGGTGCGAGTTTTACGTTGTTGCAGCGAAGCGGAAATCATTGGCAATCCTCCCATGGCAGAGCCGGGATACCGCTGGCGCGTGCC  >  NZ_CP009273/645835‑645991

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑