Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092734,594,1610CT61.1% ‑3.6 / 14.2 19S62F (TCT→TTT) bglJDNA‑binding transcriptional activator BglJ
Reads supporting (aligned to +/- strand):  ref base C (2/5);  new base T (11/0);  total (14/5)
Fisher's exact test for biased strand distribution p-value = 2.45e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.13e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTCGGCTGATTGGTTCA  >  NZ_CP009273/4594025‑4594288
                                                                                                                                        |                                                                                                                               
tGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATtttttctt                                                                                                                               <  1:271592/139‑1 (MQ=255)
                        gagaGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTGACATTTTTTTTTTCTGCCACGGGAAGTgcgggcc                                                                                                       >  2:166592/1‑133 (MQ=255)
                        gagaGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAgcgc                                                                                                        <  1:166592/138‑1 (MQ=255)
                           agTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCagag                                                                                                    <  1:5982/139‑1 (MQ=255)
                                                                tCCATACCTATACCAGTCCGGAGTCATTTCAGGATGCCATTTCGCGGATCTCGTTTGCGGCGGTCTTTTTTTTTTTTTCTGCCATGGGAAGAAAGCGCAGGGGCGGGTTGTTTTGCCTCACTTTACTGGCGGtttaact                                                               >  1:203708/1‑134 (MQ=255)
                                                                tCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCCTGAGAAGTGAGGGCAGAGAGGGGGTATCTTGCCTGACTGGACTTGCGATTAAGtt                                                               >  1:254250/1‑139 (MQ=255)
                                                                tCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGAGCAGGGAGGGGTTTTCTTGCCTGACTGAACTGGCGGTTAAggt                                                               >  1:175195/1‑137 (MQ=255)
                                                                         ataCCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTTTGCCATAAGAAGTGAGCGCCCAGAGGGGGTATTTTGTCTGAGTGAACTGGAGGTTTAGATTTCGCGGAc                                                      >  2:280422/1‑139 (MQ=255)
                                                                          taCCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTAcc                                                     <  1:106001/139‑1 (MQ=255)
                                                                               gTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTTTTTTTCTGGCATGAGAAGGGGGGGCAGAGAGGGGTTTTTTTTGCTTACTGGACTGGGGGTTTAGTTTTCGCGGACCCGGCg                                                >  1:23674/1‑139 (MQ=255)
                                                                               gTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTTTTTTTCTGCCGTGAGGAGAAAGCGCAGCGAGGGATTATCTTGCCTGAACGCACTGGCGAATTAGTTTTCGCGTACCCgggg                                                >  1:275081/1‑137 (MQ=255)
                                                                               gTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCATGAGAAGTGAGGGCAGGGGGGGGGTATTTTTTCTGACTGTACTGGCGATTAAGTTTTCGCGTACCCGGCg                                                >  2:63700/1‑139 (MQ=255)
                                                                                 cAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTTTTTTTCTTTCCTGAGGAGAGAGCGCAGAGAGGGGTTATTTTTCCTGACTGAACTGGCGGTTTAGTTTTCGCGGACCCcgcggt                                              >  2:9145/1‑137 (MQ=255)
                                                                                 cAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTATTTTTCTGCCCTGAGAAGTGAGCGCAGAGAGGGGGTATTTTGCCTTACTGAACTGGCGATTAAGTTTCCCCGTACCCGGCggt                                              >  1:212730/1‑137 (MQ=255)
                                                                                     aGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTGATTTTTTTTTTTTTTTGCCTGAGAAGTGAGCGCCGAGAGGGGTTTTCTTGTCTGACTGAACTGGGGGTTTAGTTTCCGCGGACCCGGGGTTTTGt                                          >  2:27420/1‑139 (MQ=255)
                                                                                              aGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGga                                 <  1:280422/139‑1 (MQ=255)
                                                                                                            cgGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGGCATGAGAAGGGAGCGGCGGGAGGGATTATTTTGACTGACTGAACTGGGGATTAAGATTCCGCGTAACCGGCGGTTTGTTATTGCGGGTGGAGATAATTAAg                   >  2:209754/1‑139 (MQ=255)
                                                                                                              gATCTCGTTTGCGGCGGTCATTTTTTTTTTTTCTGCCATGAGGAGTGAGCGCCGAGAGGGGTTATCTTTCCTGACTGAACTGGCGGTTAAGTTTTCGCGTACCCCGAGGTTAGTTATTGGGGATGATGATATTGAAGCt                 >  1:207933/1‑139 (MQ=255)
                                                                                                                   cGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCATGAGAAAGGGGGGCCGAGAGGGAGTATTTTGTCTGTCTGAAATGGCGGTTTAGGTTTCGAGTAACCCGGGTTTATGTTTTGCGGATGGTGATATTTAAGCTCgggt            >  2:270481/1‑137 (MQ=255)
                                                                                                                             ggTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTCGGCTGATTGGTTCa  <  1:63700/139‑1 (MQ=255)
                                                                                                                                        |                                                                                                                               
TGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTCGGCTGATTGGTTCA  >  NZ_CP009273/4594025‑4594288

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑