Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,387,0300AG54.5% 7.5 / 13.0 11L863P (CTC→CCC) yhdPAsmA2 domain‑containing protein YhdP
Reads supporting (aligned to +/- strand):  ref base A (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.

AGCGCCTTTCTGGAACAGGGCCAGCCACTCGGCACCATTCATCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGAGCGTTTTACTGTCTGCCGCCCAAATAGCACGATCGAGCGTCAGCTTTTGACCGAGCAACCAGCGGCTATTGA  >  NZ_CP009273/3386942‑3387102
                                                                                        |                                                                        
aGCGCCTTTCTGGAACAGGGCCAGCCACTCGGCACCATTCATCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGAg                                                                         <  2:338428/90‑1 (MQ=255)
                 gggCCAGCCACTCGGCACCATTCATCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGGGGGGTTTTCTGTCTtccc                                                        >  1:346673/1‑89 (MQ=255)
                  ggCCAGCCACTCGGCACCATTCATCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGAGCGTTTTACTGTCTgccgc                                                       <  1:445989/90‑1 (MQ=255)
                      agccaCTCGGCACCATTCATCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGGGCGGTTTTCTTTCTGCCGcccca                                                   >  1:215526/1‑88 (MQ=255)
                      agccaCTCGGCACCATTCATCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGGGCGGTTTTCTGTCTGccccccca                                                   >  1:123625/1‑88 (MQ=255)
                        ccaCTCGGCACCATTCATCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGAGCGTTTTACTGTCTGCCGCCCAAAt                                                 <  1:217682/90‑1 (MQ=255)
                                        aTCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGAGCGTTTTACTGTCTGCCGCCCAAATAGCACGATCGAGCGTc                                 <  1:260836/90‑1 (MQ=255)
                                        aTCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGAGCGTTTTACTGTCTGCCGCCCAAATAGCACGATCGAGCGTc                                 <  1:351049/90‑1 (MQ=255)
                                         tCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGGGGGGTTTTCTTTTTTCCCCCCCAAAAAAACGATCGAGCggcc                                >  2:223948/1‑87 (MQ=255)
                                                                       gTTCCGGCAACGGCGGGGGGGGTTTTCTTTCTGCCGCCCAAAAAGCACGAACGAGCGGCAGCTTTTTGCCGAGCAACCAACCGCCAttta  >  1:370458/1‑88 (MQ=255)
                                                                       gTTCCGGCAACGGCGGGGGCGGTTTTTTTTTTTCCCCCCCAAAAACACCAACGAGCGGCCGCCTTTTTCCGAGCAACCACCGGCCAttta  >  2:368449/1‑88 (MQ=255)
                                                                                        |                                                                        
AGCGCCTTTCTGGAACAGGGCCAGCCACTCGGCACCATTCATCGGCGGCATATTGAGTTCAACGCCACTTTGTTCCGGCAACGGCGGGAGCGTTTTACTGTCTGCCGCCCAAATAGCACGATCGAGCGTCAGCTTTTGACCGAGCAACCAGCGGCTATTGA  >  NZ_CP009273/3386942‑3387102

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑