Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,500,2950AC58.3% 6.5 / 10.7 12F15V (TTT→GTT) ydcOBenE family transporter YdcO
Reads supporting (aligned to +/- strand):  ref base A (4/1);  new base C (0/7);  total (4/8)
Fisher's exact test for biased strand distribution p-value = 1.01e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.39e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAGATTATTGCCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGC  >  NZ_CP009273/1500207‑1500366
                                                                                        |                                                                       
gagaTTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAGATTATTGCCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAAc                                                                        >  1:187210/1‑90 (MQ=255)
 agttttGTGCGGGGGTGGCTCCGGCGAAAATCGCTCCTTGCCAGATTATTGCCGCTGAACGGGCGTAGCCAATTAACCCCGCCA‑AAAccc                                                                      <  1:176186/87‑1 (MQ=255)
     ttGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAGATTATTGCCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGc                                                                   >  2:238352/1‑90 (MQ=255)
      tgtgCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAGATTATTGCCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGcc                                                                  >  1:38183/1‑90 (MQ=255)
                       ggCGACAACCGCTGCTTGCCAGATTATTGCCGCTGAACTGGCGTAGCAAATTAATCCCGCCAGAACCCCCGCCAGTAGCGTGGGTggagg                                                 <  2:1333/90‑1 (MQ=255)
                       ggCAACAACCGCTCCTTCCAAATTTTTTCCCGCTGAACGGGGGAACCAAATAAACCCCCCCAAAACCCCCGCCAGTAGCGTGGGTggagg                                                 <  1:71409/90‑1 (MQ=255)
                                 gctgttTGCAAGTTTTTTGCCGCTGAACGGGCGTAGCAAATTAATCCCGCCAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAAc                                       <  2:541125/90‑1 (MQ=255)
                                 cctgctgGCCAGTTTATGGCCGGTGAAGGGGGGAAGCAAATAAACCCCGCCAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAAc                                       <  1:569073/89‑1 (MQ=255)
                                                            cgggCGTAGCAAATTAATCCCGCCAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTtata            <  2:253623/88‑1 (MQ=255)
                                                              ggCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGc          >  2:568684/1‑90 (MQ=255)
                                                                   tgCCATTTAACCCCGCGGGAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACa     <  2:369177/89‑1 (MQ=255)
                                                                      aaaTAAATCCCGCCAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGc  <  2:444790/89‑1 (MQ=255)
                                                                                        |                                                                       
GAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAGATTATTGCCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGC  >  NZ_CP009273/1500207‑1500366

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑