Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,009,4790TG54.5% 7.6 / 12.7 11G255G (GGT→GGG) pqiBintermembrane transport protein PqiB
Reads supporting (aligned to +/- strand):  ref base T (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.

CAGCAGGGATGCGTGTGGAGATGGGCTCATTGACAACGCTGCTGAGTGGCGGTGTCAGCTTTGATGTGCCGGAAGGTCTGGATTTAGGGCAGCCAGTGGCACCGAAAACAGCTTTCGTTTTGTATGATGATCAGAAGAGCATTCAGGATT  >  NZ_CP009273/1009403‑1009552
                                                                            |                                                                         
cagcagGGATGCGTGTGGAGATGGGCTCATTGACAACGCTGCTGAGTGGCGGTGTCAGCTTTGATGTGCCGGAAGGTCTGGATTTAGGGc                                                              <  2:77184/90‑1 (MQ=255)
         tGCGTGTGGAGATGGGCTCATTGACAACGCTGCTGAGTGGCGGTGTCAGCTTTGATGTGCCGGAAGGTCTGGATTTAGGGCAGCCAGTgg                                                     <  1:23603/90‑1 (MQ=255)
          gCGTGTGGAGATGGGCTCATTGACAACGCTGCTGAGTGGCGGGGGGAGCTTTTGTGTGCCGGGAGGGCTGGATTTAAGGGCGCCAggggg                                                    >  2:282122/1‑89 (MQ=255)
                     tGGGCTCATTGACAACGCTGCTGAGTGGCGGTGTCAGCTTTTTTGTGGCGGGAGGGCTGGGTTTTGGGGGGCCCGGGGGACCCaaaaaaa                                         >  1:104414/1‑87 (MQ=255)
                     tGGGCTCATTGACAACGCTGCTGAGTGGCGGTGTCAGCTTTGTTGTGTCGGGAGGGCTGGGTTTTGGGGAGCCAGGGGGACCCGAAACAg                                         >  1:101701/1‑90 (MQ=255)
                     tGGGCTCATTGACAACGCTGCTGAGTGGCGGGGTCCGCTTTGTTTTGGCGGCAGGGCTGGGTTTTGGGGAGCCCGGGGCGCCGCAAACac                                         >  1:196604/1‑89 (MQ=255)
                      gggCTCATTGACAACGCTGCTGAGTGGCGGTGTCAGCTTTTATGTGGCGGGAGGGCTGGGTTTAGGGCAGCCAGGGGGACCGAAAAAAGc                                        >  2:59610/1‑90 (MQ=255)
                                   aCGCTGCTGAGTGGCGGTGTCAGCTTTTTTTTGCCGGGAGGGCTGGGTTTTGGGGAGCCCGGGGGGCCCAAAAAAACCTTTGtttttttt                           >  1:385320/1‑86 (MQ=255)
                                       tgctgAGTGGCGGTGTCAGCTTTGATGTGCCGGAAGGTCTGGATTTAGGGCAGCCAGTGGCACCGAAAACAGCTTTCGTTTTGTatgatg                       <  1:231519/90‑1 (MQ=255)
                                          tgAGTGGCGGTGTCAGCTTTGATGTGCCGGAAGGTCTGGATTTAGGGCAGCCAGTGGCACCGAAAACAGCTTTCGTTTTGTATGATGATc                    <  1:170922/90‑1 (MQ=255)
                                                            ttGATGTGCCGGAAGGTCTGGATTTAGGGCAGCCAGTGGCACCGAAAACAGCTTTCGTTTTGTATGATGATCAGAAGAGCATTCAGGAtt  <  2:423567/90‑1 (MQ=255)
                                                                            |                                                                         
CAGCAGGGATGCGTGTGGAGATGGGCTCATTGACAACGCTGCTGAGTGGCGGTGTCAGCTTTGATGTGCCGGAAGGTCTGGATTTAGGGCAGCCAGTGGCACCGAAAACAGCTTTCGTTTTGTATGATGATCAGAAGAGCATTCAGGATT  >  NZ_CP009273/1009403‑1009552

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑