Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,975,9940CG53.8% 8.4 / 13.7 13intergenic (‑126/+41)otsB/araHtrehalose‑phosphatase/arabinose ABC transporter permease AraH
Reads supporting (aligned to +/- strand):  ref base C (1/5);  new base G (7/0);  total (8/5)
Fisher's exact test for biased strand distribution p-value = 4.66e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.13e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CGCTTTACAGACATGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGA  >  NZ_CP009273/1975912‑1976072
                                                                                  |                                                                              
cgcTTTACAGACATGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGGTGGGGAtgggg                                                                         >  2:362721/1‑88 (MQ=255)
              gTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCGATGGTGGGGGAAAAAGccga                                                           >  1:206708/1‑87 (MQ=255)
                       gACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGGTATGGGGGGGAAAAAAGCTAAAATTTTGCa                                                  >  1:131618/1‑90 (MQ=255)
                           gtgtGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGGTTGGTTTGGGGGGGAAAAAAGCCAAAATGTTTCAGaaa                                              >  1:623537/1‑90 (MQ=255)
                           gtgtGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGGTGGGGTTGGGGGGGGAAAAAAACAAATTGTTGAAGaaa                                              >  2:6429/1‑90 (MQ=255)
                            tgtgACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGGTTTGGGGGGGAAAAAAACTAAAATTTTTTAGaaaa                                             >  1:182311/1‑90 (MQ=255)
                            tgtgACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGGGGGGTTTGGGGGGGGAAAAAGATAAAATTTTTCAGaaaa                                             >  2:493411/1‑90 (MQ=255)
                             gtgACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGaaaaa                                            <  1:378836/90‑1 (MQ=255)
                             gtgACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGaaaaa                                            <  2:933990/90‑1 (MQ=255)
                                     ggTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGGTATGGGGGGGAAAAAAACTAAATTGTTGGAGAAAAAAACAACAg                                    >  1:399297/1‑90 (MQ=255)
                                                                aaCCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTaa         <  1:913301/90‑1 (MQ=255)
                                                                 aCCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAAc        <  1:902433/90‑1 (MQ=255)
                                                                       aTGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGa  <  1:493411/90‑1 (MQ=255)
                                                                                  |                                                                              
CGCTTTACAGACATGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGA  >  NZ_CP009273/1975912‑1976072

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑