Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273216,6020AC58.3% 5.5 / 11.3 12*272E (TAA→GAA) metQmethionine ABC transporter substrate‑binding lipoprotein MetQ
Reads supporting (aligned to +/- strand):  ref base A (5/0);  new base C (0/7);  total (5/7)
Fisher's exact test for biased strand distribution p-value = 1.26e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.93e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GCCCGTCCTGAATGATATTACAAATTGTGGAAACAGCCTAAAAATTACCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGTCAGACTGATAA  >  NZ_CP009273/216556‑216669
                                              |                                                                   
gcccgcccTAAATAATATTAAAATTTGTGAAAACACCCTAAAAATTCCCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTgctgct                          <  2:152371/90‑1 (MQ=255)
        tGAATGATATTAAAAATTGTGGAAACAGCCTAAAAATTCCCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAAc                  <  1:277820/90‑1 (MQ=255)
        tGAATAATATTACAAATTGTGAAAACAGCCAAAAAATTCCCACCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAAc                  <  2:115300/90‑1 (MQ=255)
             gATATTACAAATTGTGAAAACAGCCTAAAAATTCCCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGt             <  1:394663/90‑1 (MQ=255)
             gATATTAAAATTTGTGAAAACAGCCAAAAAATTCCCAGCTTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGt             <  2:125111/90‑1 (MQ=255)
             aatatTAAAATTTGTGAAAACAGCCAAAAAATTCCCACCCTTAAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGt             <  2:145855/89‑1 (MQ=255)
                 ttACAAATTGTGGAAACAGCCTAAAAATTACCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGTCAGa         >  2:54585/1‑90 (MQ=255)
                   aCAAATTGTGGAAACAGCCTAAAAATTACCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGTCAGACt       >  1:433487/1‑90 (MQ=255)
                       aTTGTGGAAACACCCAAAAAATTCCCACCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGTCAGACTGATa   <  1:217984/90‑1 (MQ=255)
                        ttGTGGAAACAGCCTAAAAATTACCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGTCAGACTGATac  >  1:145855/1‑89 (MQ=255)
                        ttGTGGAAACAGCCTAAAAATTACCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGTCAGACTGATaa  >  1:103733/1‑90 (MQ=255)
                        ttGTGGAAACAGCCTAAAAATTACCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGTCAGACTGATaa  >  1:321890/1‑90 (MQ=255)
                                              |                                                                   
GCCCGTCCTGAATGATATTACAAATTGTGGAAACAGCCTAAAAATTACCAGCCTTTAACAGCTCCGCCGTTAAACACTTTGTTTGCTGCTTCGTAAACTTCGTCAGACTGATAA  >  NZ_CP009273/216556‑216669

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑