Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,918,9490AC53.8% 12.1 / 14.0 13G15G (GGT→GGGmnmGtRNA uridine‑5‑carboxymethylaminomethyl(34) synthesis enzyme MnmG
Reads supporting (aligned to +/- strand):  ref base A (5/1);  new base C (0/7);  total (5/8)
Fisher's exact test for biased strand distribution p-value = 4.66e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.56e-03
Rejected as consensus: Frequency below/above cutoff threshold.

GTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGTCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGC  >  NZ_CP009273/3918874‑3919014
                                                                           |                                                                 
gtCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAatgat                                                     >  1:189337/1‑90 (MQ=255)
gtCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAatgat                                                     >  1:47218/1‑90 (MQ=255)
          tgtgtCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGTCa                                           >  1:312918/1‑90 (MQ=255)
           gtgtCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGTCaa                                          >  1:409470/1‑90 (MQ=255)
                  aaGGAGAGTGTGTAAACCCATACGCGCCGCGGCCTTCGCGGCCCGGGTGCAGGGATGCCCCCCGCCAATGATGATGACGTCAAAAGGATc                                   <  1:217479/90‑1 (MQ=255)
                  aaGCAGATTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGCCCCCCGCCAATGATGATGACGTCAAAAGGATc                                   <  1:167368/90‑1 (MQ=255)
                  aaGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGCCCCCCGCCAATGATGATGACGTCAAAAGGATc                                   <  2:17787/90‑1 (MQ=255)
                  aaGCAGAGTCTGTCGCCCAATACGCGCCGCGGCCATCGCGGCCTGGGTGCCTGCATGCCCCCCGCCAATGATGATGACGTCAAAAGGATc                                   <  2:378268/90‑1 (MQ=255)
                        agTCTGTTGCCCCATACGCGCCGCGGCCATCGCGGCCTGGGTGCCTGCATGCCCCCCGCCAATGATGATGACGTCAAAAGGATCCGGATa                             <  2:339840/90‑1 (MQ=255)
                                 aCCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGTCAAAAGGATCCGGATAAAACATGGt                    >  1:144534/1‑90 (MQ=255)
                                        cgcgCCGCGGCCATCGCGGCCTCGGTGCCTGCATGCCCCCCGCCAATGATGATGACGTCAAAAGGATCCGGATAAAACATGGTGATTGcc             <  2:129129/90‑1 (MQ=255)
                                         gcgcCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGTCAAAAGGATCCGGATAAAACATGGTGATTGCCt            <  1:36129/90‑1 (MQ=255)
                                                   cagcgcgGCCTGGGGGCCTGCATGCCCCCCGCCAATGATGATGACGTCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAAcgc  <  2:47218/87‑1 (MQ=255)
                                                                           |                                                                 
GTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGTCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGC  >  NZ_CP009273/3918874‑3919014

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: