Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP00927315,3820AG54.5% 7.2 / 11.9 11intergenic (+84/‑63)dnaJ/BW25113_RS00080molecular chaperone DnaJ/IS4‑like element IS421 family transposase
Reads supporting (aligned to +/- strand):  ref base A (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.

CCTGCCCGTGGGCAGGCCTGGGTAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAA  >  NZ_CP009273/15311‑15449
                                                                       |                                                                   
ccTGCCCGTGGGCAGGCCTGGGTAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTa                                                   <  1:297860/90‑1 (MQ=255)
     ccGTGGGCAGGCCTGGGTAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTa                                              <  2:304933/90‑1 (MQ=255)
          ggCAGGCCTGGGTAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGTGGGGATCACTCCCATAAGCGCTAACTTAAGGGt                                         <  2:163203/90‑1 (MQ=255)
             aGGCCTGGGTAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTtgt                                      <  1:499825/90‑1 (MQ=255)
              ggCCTGGGTAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTtgtg                                     <  2:79237/90‑1 (MQ=255)
                 cTGGGTAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGGGGACTCCCCTAAAGGGTAAATTTAAGGGTGTgggg                                  >  2:504882/1‑88 (MQ=255)
                             aGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGGTCACTCCCCTAAACGCTAACTTAAGGGGTGTGGGATTAAGCCTGata                      >  1:89716/1‑90 (MQ=37)
                               ggTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGGGCACTCCCCTAAGAGCTAAATTAAGGGGTGTGGGATTTTGCCTGgtatt                    >  1:68033/1‑89 (MQ=255)
                                  gCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGGGCACTCCCCTAAACGCTAACTTAAAGGGTGTGGGATTTTGCCCGGTattatt                 >  1:156837/1‑90 (MQ=255)
                                            tatGCGAGCACCTGTAAAGTGGCGGGGGACCCTCCCCTTAACGCCAACTTAAAGGGTGTGGGATTACACCTGGTTTTATTTTACGTGccc       >  1:640692/1‑89 (MQ=255)
                                                 gAGCACCTGTAAAGTGGCGGGGGGGACTCCCATAAACCCTAACTTTAGGGGTGGGGGGTTTAGCCTGATATGATTTTAATTGCCGATGaa  >  2:646729/1‑90 (MQ=12)
                                                                       |                                                                   
CCTGCCCGTGGGCAGGCCTGGGTAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAA  >  NZ_CP009273/15311‑15449

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑