Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092732,897,0510CA55.6% ‑1.3 / 10.9 9intergenic (+318/+1055)ygcE/queEFGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE
Reads supporting (aligned to +/- strand):  ref base C (0/4);  new base A (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.

CACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTC‑AAAACAAAGACAAACTTCCAG‑ATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAA  >  NZ_CP009273/2896976‑2897139
                                                                           |                                                                                          
cACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTc                                                                              <  2:170051/90‑1 (MQ=255)
             aaCTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTC‑AAAACAAAGACaa                                                                <  1:482540/90‑1 (MQ=255)
                      tCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTAAAAACAACCATTTACCTCTAAAAAAAAAAAAAAATTCCaa                                                        >  2:499019/1‑89 (MQ=255)
                                tAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAACACCCCTTAACCTC‑AAAAAAAAAACAAAAATCCCC‑ATTTATTACtt                                            >  1:308848/1‑90 (MQ=255)
                                        aTTCATCAACAGCGTATAGAGGCGGTTTTTTAAAAACACCCATTTACCCC‑AAAAAAAAAAAAAAAATCCAGAATTTTTTATTTAACaaaa                                     >  2:59247/1‑89 (MQ=255)
                                             tcaACAGCGTATAGAGGCGGTTTTTTAAAAACACTCATTAGCCCC‑AAAAAAAAAACAAAATTCCCG‑ATTTTTTTCTTTAACAAAAAATaa                               >  1:256490/1‑90 (MQ=255)
                                                   gCGTATAGAGGCGGGTATGTAAAAACACCCCTTAACCTC‑AAAAAAAAAAAAAAAATCCAC‑ATTTATTTTTTAACCAAAAAATAaaaaaat                         >  2:295196/1‑87 (MQ=255)
                                                               ggTTATGTAAAACCACTCATTAGCCTC‑AAAACAAAGACAAACTTCCAG‑ATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATAc             <  2:168320/90‑1 (MQ=255)
                                                                          aCCACTCATTAGCCTC‑AAAACAAAGACAAACTTCCAG‑ATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTaa  <  1:245070/90‑1 (MQ=255)
                                                                           |                                                                                          
CACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTC‑AAAACAAAGACAAACTTCCAG‑ATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAA  >  NZ_CP009273/2896976‑2897139

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑