Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273416,4780AC53.8% 7.0 / 14.0 13T13P (ACC→CCC) proYproline‑specific permease ProY
Reads supporting (aligned to +/- strand):  ref base A (6/0);  new base C (0/7);  total (6/7)
Fisher's exact test for biased strand distribution p-value = 5.83e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.56e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

ATGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACG  >  NZ_CP009273/416401‑416547
                                                                             |                                                                     
aTGCCCCGTGTTTTTTTATTGTGTTGATGGGTAAGAAATTGAGGAAAAGTAAAAAAAAGCAAAAGCGTGGGCTAAGTCCCCGCCACATAc                                                           <  1:43300/90‑1 (MQ=255)
aTGCCCCGTGGTTTTTTTTTGGGTTGATGGGTTAGAAATTGAGGAAAAGAAAGAACAAGCAAAAGCGGGGGCTAAGTCCCCGCCACATAc                                                           <  1:317461/90‑1 (MQ=255)
aTGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCAAAAGCGGGGGCTAAGTCCCCGCCACATAc                                                           <  1:22145/90‑1 (MQ=255)
  gCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGc                                                         >  1:263067/1‑90 (MQ=255)
  gCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGc                                                         >  1:3328/1‑90 (MQ=255)
  gCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGc                                                         >  2:276302/1‑90 (MQ=255)
              ttttttGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCAAAAGCGGGGGCTAAGTCCCCGCCACATACGCTTTATGGCACTg                                             <  2:351512/90‑1 (MQ=255)
                    gtgtTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCa                                       >  2:212715/1‑90 (MQ=255)
                      gtTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGc                                     >  1:238353/1‑90 (MQ=255)
                                tAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCAcc                           >  1:227458/1‑90 (MQ=255)
                                    aaTTGATGGAAAGAAAAAACAAGCAAAAGCGGGGGCTAAGTCCCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGc                       <  2:238353/90‑1 (MQ=255)
                                    aaTTGATGAAAGGAAAGAAAAGGCTAAGGGGGGGGCTAAGCCCCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGc                       <  1:41445/90‑1 (MQ=255)
                                                         agaaaaaGGGTGGGCTAAGTCCCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACg  <  2:217959/86‑1 (MQ=255)
                                                                             |                                                                     
ATGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACG  >  NZ_CP009273/416401‑416547

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑