Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,853,9260AG58.3% 3.8 / 11.5 13P187P (CCT→CCC) ydjKMFS transporter
Reads supporting (aligned to +/- strand):  ref base A (4/1);  new base G (1/6);  total (5/8)
Fisher's exact test for biased strand distribution p-value = 7.20e-02
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.

TGATACCGTCCGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCGCTATCAATGAACAGAGC  >  NZ_CP009273/1853840‑1854004
                                                                                      |                                                                              
tGATACCGTCCGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAggg                                                                             >  1:13567/1‑90 (MQ=255)
      cGTCCGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCCGGGATAAGc                                                                       <  1:105081/90‑1 (MQ=255)
       gTCCGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCa                                                                      >  2:45098/1‑90 (MQ=255)
       gTCCGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCa                                                                      >  2:483247/1‑90 (MQ=255)
       gTCCGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGAAGCGCCAGCCCAGCGCCGTAGCGATAAGCGAAAATATTGCGGGGATAACCa                                                                      >  2:323396/1‑90 (MQ=255)
         ccGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGt                                                                    <  1:444971/90‑1 (MQ=255)
                aTTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGTTGTAccc                                                             >  1:277704/1‑90 (MQ=255)
                                  aTTCGGAAAAGGGGCCCCAGCCCAGCCCCGTAGCAAAAAGCAAAAATATGGGGGGGAAAAGCTTTTTTCCCCGCCAGTTCCACTCTGCAc                                           <  2:457755/90‑1 (MQ=255)
                                                cgcCGGCCCAGCCCGGTAGCAAAAAGCAAAAATTTTGCGGGAATAAGCGGTTGTCCCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTg                             <  2:277704/90‑1 (MQ=255)
                                                       ccagCGCCGTAGCAAAAAGCAAAAATATGGGGGGAAAAAGGATTTGTCCCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCa                      <  1:45098/90‑1 (MQ=255)
                                                            gcCGTAGCAATAAGCAAAAATATGGGGGGAAAAAGCTTTTTTCCCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCGCt                 <  2:69533/90‑1 (MQ=255)
                                                                      aaaGCAAAAATATGGGGGGGAAAAGCTTTTGCCCCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCGCTATCAATGAAc       <  1:83693/89‑1 (MQ=255)
                                                                           aaaaaTATTGGGGGGAAAAGCAGTTGTCCCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCGCTATCAATGAACAGAGc  <  1:143411/87‑1 (MQ=255)
                                                                                      |                                                                              
TGATACCGTCCGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCGCTATCAATGAACAGAGC  >  NZ_CP009273/1853840‑1854004

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: ‑