Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273842,9000GT55.6% 7.7 / 12.1 9I187I (ATC→ATA) glnHglutamine ABC transporter substrate‑binding protein GlnH
Reads supporting (aligned to +/- strand):  ref base G (0/4);  new base T (5/0);  total (5/4)
Fisher's exact test for biased strand distribution p-value = 7.94e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.17e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

ACCTTTCGGGAACGCAATACCGTATTGCTGCGCTTCCAGAGAGTCACCTACCGCTTTGAACTGACCGTTACCGGCGGTTTTGATGAAGTACAGAATGTTTGGCGTATCGTGCAGAACGGCGTCTGCGCGGTTGGTGCCCAGTTCCATATAGGC  >  NZ_CP009273/842819‑842971
                                                                                 |                                                                       
aCCTTTCGGGAACGCAATACCGTATTGCTGCGCTTCCAGAGAGTCACCTACCGCTTTGAACTGACCGTTACCGGCGGGTTTTTTGAAgga                                                                 >  1:366865/1‑88 (MQ=255)
     tCGGGAACGCAATACCGTATTGCTGCGCTTCCAGAGAGTCACCTACCGCTTTGAACTGACCGTTACCGGCGGTTTTTTTGAAGGACAGaa                                                            >  1:113199/1‑90 (MQ=255)
                 tACCGTATTGCTGCGCTTCCAGAGAGTCACCTACCGCTTTGAACTGACCGTTACCGGCGGTTTTGATGAAGTACAGAATGTTTGGCGTAt                                                <  2:230544/90‑1 (MQ=255)
                            tgcGCTTCCAGAGAGTCACCTACCGCTTTGAACTGACCGTTACCGGCGGTTTTTATGAAGTACAGAAAGTTTGGCGTATCGTGCAGAACg                                     >  1:149076/1‑90 (MQ=255)
                             gcgcTTCCAGAGAGTCACCTACCGCTTTGAACTGACCGTTACCGGCGGTTTTTTTGAAGAAAAAAAAGTTTTGGGGATCGTGGAGAAAgg                                    >  2:14131/1‑90 (MQ=255)
                                                 aCCGCTTTGAACTGACCGTTACCGGCGGTTTTGATGAAGTACAGAATGTTTGGCGTATCGTGCAGAACGGCGTCTGCGCGGTTGGTGccc                <  2:88824/90‑1 (MQ=255)
                                                    gCTTTGAACTGACCGTTACCGGCGGTTTTTATGAAGTACAGAATGTTTGGCGGATCGTGCAGAACGGCGGCTGCGCGGGTGGTGCCCCGt             >  1:120880/1‑90 (MQ=255)
                                                            cTGACCGTTACCGGCGGTTTTGATGAAGTACAGAATGTTTGGCGTATCGTGCAGAACGGCGTCTGCGCGGTTGGTGCCCAGTTCCAtata     <  2:366865/90‑1 (MQ=255)
                                                               aCCGTTACCGGCGGTTTTGATGAAGTACAGAATGTTTGGCGTATCGTGCAGAACGGCGTCTGCGCGGTTGGTGCCCAGTTCCATATAGGc  <  2:271077/90‑1 (MQ=255)
                                                                                 |                                                                       
ACCTTTCGGGAACGCAATACCGTATTGCTGCGCTTCCAGAGAGTCACCTACCGCTTTGAACTGACCGTTACCGGCGGTTTTGATGAAGTACAGAATGTTTGGCGTATCGTGCAGAACGGCGTCTGCGCGGTTGGTGCCCAGTTCCATATAGGC  >  NZ_CP009273/842819‑842971

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑