Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092734,368,6060AC54.5% 8.1 / 12.8 13G52G (GGT→GGG) ampCBlaEC family class C beta‑lactamase
Reads supporting (aligned to +/- strand):  ref base A (5/0);  new base C (0/6);  total (5/8)
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.

ACGTTTGCTGTGTGACGGGCTGCTTTTTGGCGATGTCCGCATAGCCCCAGGTAAAGTAATAAGGTTTACCC‑TGATAAATTACCGCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGCGGGGTAATTGTGCGATGCACAATATCGTTGATT  >  NZ_CP009273/4368539‑4368693
                                                                   |                                                                                        
acGTTTGCTGTGTGACGGGCTGCTTTTTGGCGATGTCCGCATAGCCCCAGGTAAAGTAATAAGGTTTACCC‑TGATAAATTaccgccaccg                                                                   >  2:404086/1‑90 (MQ=255)
           gtgACGGGCTGCTTTTTGGCGATGTCCGCATAGCCCCAGGTAAAGTAATAAGGTTTACCC‑TGATAAATTACCGCCACCGCCATACCCggg                                                        >  1:420051/1‑90 (MQ=255)
               ggggCTTTTTTTGGGGGATGCCCGCATAGCCCCGGGAAAAG‑AAAAAGGTTTTCCCGTAAAAATTTCCCGCCACCGCCATACCCGGGATCt                                                    <  1:418908/89‑1 (MQ=255)
                                aTGCCCGCATCCCCCAAGGAAAAGTAATAAGTTTTCCCC‑TAAAAAATTCCCCCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGc                                   <  1:788/90‑1 (MQ=255)
                                aTGCCCGCATCCCCCAAGGAAAAAAAAAAAGTTTTCCCC‑TGAAAAATCCCCCCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGc                                   <  1:254385/90‑1 (MQ=255)
                                aTGCCCGCATACCCCCAGGAAAAGTAATAAGTTTTCCCC‑TAATAAATTCCCGCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGc                                   <  1:153965/90‑1 (MQ=255)
                                aTGCCCGCATA‑CCCCAAGAAAAAAAAAAAGGTTTTCCCTTAAAAAATCCCCCCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGc                                   <  2:108390/90‑1 (MQ=255)
                                  gcccGCAAACCCCAAGAAAAAGAAATAAGTTTTCCCC‑TAAAAAATTCCCCCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGCgg                                 <  2:158368/88‑1 (MQ=255)
                                               aaGGAAAAGAAATAAGTTTTCCCC‑TAAAAAATTCCCGCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGCGGGGTAATTGTGCGa                    <  1:26485/89‑1 (MQ=255)
                                                    aaaGTAAAAAGTTTTCCCC‑TAATAAATTCCCCCCCCCGCCATACCCGGGATCTTTTGTTGCTCTATAAGCGGGGTAATTGTGCGATGcac               <  1:14174/90‑1 (MQ=255)
                                                     aaGTAATAAGGTTTACCC‑TGATAAATTACCGCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGCGGGGTAATTGTGCGATGcaca              >  2:239286/1‑90 (MQ=255)
                                                                 ttACCC‑TGATAAATTACCGCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGCGGGGTAATTGTGCGATGCACAATATCGTTGAtt  >  1:12480/1‑90 (MQ=255)
                                                                 ttACCC‑TGATAAATTACCGCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGCGGGGTAATTGTGCGATGCACAATATCGTTGAtt  >  1:493817/1‑90 (MQ=255)
                                                                   |                                                                                        
ACGTTTGCTGTGTGACGGGCTGCTTTTTGGCGATGTCCGCATAGCCCCAGGTAAAGTAATAAGGTTTACCC‑TGATAAATTACCGCCACCGCCATACCCGGGATCTTTTGTTGCTCTATAAGCGGGGTAATTGTGCGATGCACAATATCGTTGATT  >  NZ_CP009273/4368539‑4368693

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑