Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,224,028	0	T	A	26.5%	79.0 / 11.6	34	intergenic (+121/+251)	ycgI/minE	pseudogene/cell division topological specificity factor
Reads supporting (aligned to +/- strand):  ref base T (6/19);  new base A (9/0);  total (15/19)
Fisher's exact test for biased strand distribution p-value = 9.54e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

TTCAGCAGTACGTTTAGCGGACATCTCGGGGTGGGGTATAGCCATGGTGCCGGTGTGGAATCCCCGTGGAACGCGGTGGCTGGTGTGAACTGGTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTAAGGTGTAAAGGGGGAGGTGGAAATAGCAATGAGGAGTATCAGCAAGAATACTCGCCGCTTTACCACAACGTGGATGAGAGGGATGAAAAACTCAAGGCAGAGATAACTCTGCCTTGAAGATAAAT  >  NC_000913/1223806‑1224261                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                          tgcagcagTACGTTTAGCGGACATCTGGGGGTGGGGTATAGCCATGGTGCCGGTGTGGAATCCCCGTGGAACGCGGTGGCTGGTGTGAACTGGTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCg                                                                                                                                                                                                                           <  1:886994/237‑1 (MQ=255)              ttAGCGGCCATTTGGGGGTGGGTTATAGCCATGGTGCCGGTGTGGAATCCCCGTGGAACGCGGTGGCTGGTGTGAACTGGTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCAtct                                                                                                                                                                                                               <  2:876670/238‑1 (MQ=255)                                             tGGTGCCGGTGTGGAATCCCCGTGGAACGCGGTGGCTGGTGTGAACTGGTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGGAACAACATTCCTTTGGG‑GAAAAAAGaata                                                                                                                                                                                                                                      >  2:706148/1‑184 (MQ=37)                                                                  gTGGAACGCGGTGGCTGGTGTGAACTGGTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATa                                                                                                                                                                                       <  2:608421/210‑1 (MQ=255)                                                                  gTGGAACGCGGTGGCTGGTGTGAACTGGTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATa                                                                                                                                                                                       >  1:608421/1‑210 (MQ=255)                                                                    ggAACGCGGTGGCTGGTGTGAACTGGTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACAtt                                                                                                                                                         <  1:691417/238‑1 (MQ=255)                                                                                   gtgtGAACTGGTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCg                                                                                                                                                                                                                           <  1:986176/157‑1 (MQ=255)                                                                                     tggAACTGGTCGTTCTGACCATCAACGATTAACCTGCGTTTCGGCGCAGTTTTCGTTTACAGGGTGTTAAAAGGGAAAATTCGGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGaa                                                                                                                                       <  2:212732/237‑1 (MQ=255)                                                                                             gTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGCGGGGAAACCCCC‑CCCT‑TGGGGGAAAAAAGAATAATGAAATTTGGGGGGTgtcat                                                                                                                                                                                                                 >  2:986176/1‑157 (MQ=255)                                                                                                 ttCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCg                                                                                                                                                                                                                           <  1:376696/143‑1 (MQ=255)                                                                                                      aCCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTAAGGTGTaaa                                                                                                                      <  1:789002/239‑1 (MQ=255)                                                                                                           cAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGGAAAAACA‑TTCTATTGGGGAAAAAAGAAAAAAGAAAATGCGGGGGTatcat                                                                                                                                                                                                                 >  2:376696/1‑143 (MQ=255)                                                                                                                 ttAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAg                                                                                                                                                                                                          <  1:960256/144‑1 (MQ=255)                                                                                                                         cgcTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTAc                                                                                                                                                                            <  1:535532/166‑1 (MQ=255)                                                                                                                         cgcTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAAACTCA‑TCCCATGGGGGAAAAAAAAATAATTAAAATGAGGGGGTATCATTTCCCAGGATATCCCTAACAAAAAAAAAGGTATTGTTTTAAACCGACATAAAAAATTTGTTTTTTTCGTGGGGAAAGCCTTTAAGTGGAAAAGGGGAGAGGGGAATATCa                                                                                                   >  2:841334/1‑239 (MQ=255)                                                                                                                           cTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCCCA‑TCCTATGGGGGAACAATGAAAAATGAAATTGTGGGGGTATTATCTCCCCGTATATTCATa                                                                                                                                                                                                >  2:960256/1‑144 (MQ=255)                                                                                                                                      ttttCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCAtct                                                                                                                                                                                                               <  1:802829/118‑1 (MQ=255)                                                                                                                                                cAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGGAAACCCA‑TCCCTTGGGGGAAAAAAGAAAAATTAAAATGGGGGGGTTTTATCTCCCCGGatat                                                                                                                                                                                                     >  2:802829/1‑118 (MQ=255)                                                                                                                                                 aGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATc                                                                                                                                                                                                    <  1:260681/118‑1 (MQ=255)                                                                                                                                                     tGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTg                                                                                                                                                                                                                             <  1:914468/89‑1 (MQ=255)                                                                                                                                                           aaGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGGAACACCA‑TCCCATTGGGGGAAAAAAAAAAATGAAAATGTGGGGGGATCATCTCCCCCTATATCCATACTaaaa                                                                                                                                                                                          >  2:260681/1‑116 (MQ=255)                                                                                                                                                               gAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGGAACCTCA‑TCCTTTTGGGGGACAAAAAAAAATAAAAATGCGGGGGTatt                                                                                                                                                                                                                   >  2:914468/1‑88 (MQ=255)                                                                                                                                                                    ttCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCg                                                                                                                                                                                                                           <  2:905600/76‑1 (MQ=255)                                                                                                                                                                     tCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGaa                                                                                                                                       <  1:65711/159‑1 (MQ=255)                                                                                                                                                                          ggCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGtt                                                                                                                                                                                  <  1:449438/111‑1 (MQ=255)                                                                                                                                                                              aaaaaaGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGGGAAAAAAGAATAATGAAATTGCGGGGGTatcat                                                                                                                                                                                                                 >  1:905600/1‑76 (MQ=255)                                                                                                                                                                               aaaaaGCCCGCCAGTTACGGC‑GGGAAAACCCA‑TCCTATGGGGGAAAAAAGAAAAAAGAAAATTTGGGGGTATCATCTCCCCGTATATCCATACTAACAATAAAGGTATTTATTCAACCAGGCATAAACAATTTTTTTTTTGTGTGGGGACAGACTTAAg                                                                                                                             >  2:65711/1‑159 (MQ=255)                                                                                                                                                                                            gTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCg                                                                                                                                             <  1:967407/130‑1 (MQ=255)                                                                                                                                                                                                                            aaCAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTaa                                                                                                                              <  2:253498/115‑1 (MQ=255)                                                                                                                                                                                                                            aaCAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTaa                                                                                                                              >  1:253498/1‑115 (MQ=255)                                                                                                                                                                                                                            aaCAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTAAGGTGTAAAGGGGGAGGTGGAAATAGCAATGAGGAGTATCAGCAAGAATACTCGCCGCTTTACCACAACGTGGATGAGAGGGATGAAAAACTCAAGGCAGAGATAACTCTGCCTTGAAGATAAAt  >  2:1004859/1‑239 (MQ=255)                                                                                                                                                                                                                            aaCAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTAAGGTGTAAAGGGGGAGGTGGAAATAGCAATGAGGAGTATCAGCAAGAATACTCGCCGCTTTACCACAACGTGGATGAGAGGGATGAAAAACTCAAGGCAGAGATAACTCTGCCTTGAAGATAAAt  >  1:902094/1‑239 (MQ=255)                                                                                                                                                                                                                                aTGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTAAGGTGTAAAGGGGGAGGTGGAAATAGCAATGAGGAGTa                                                                                         <  2:995121/148‑1 (MQ=255)                                                                                                                                                                                                                                aTGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTAAGGTGTAAAGGGGGAGGTGGAAATAGCAATGAGGAGTa                                                                                         >  1:995121/1‑148 (MQ=255)                                                                                                                                                                                                                                 tGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTAAGGTGTAAAGGGGGAGGTGGAAATAGCAATGAGGAGTATCAGCAAGAATACTCGCCGCTTTACCACAAc                                                          >  2:361679/1‑178 (MQ=255)                                                                                                                                                                                                                                 tGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTAAGGTGTAAAGGGGGAGGTGGAAATAGCAATGAGGAGTATCAGCAAGAATACTCGCCGCTTTACCACAAc                                                          <  1:361679/178‑1 (MQ=255)                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                          TTCAGCAGTACGTTTAGCGGACATCTCGGGGTGGGGTATAGCCATGGTGCCGGTGTGGAATCCCCGTGGAACGCGGTGGCTGGTGTGAACTGGTCGTTCTGACCATCAACGATTAAACTGCGCTTCGGCGCAGTTTTCGTTTACAGGATGTTGAAAGGGAAAATTCTGGGGCAAAAAAAGCCCGCCAGTTACGGC‑GGGAAACCTCA‑TCCTATGGGAGAACAATGAATAATGAAATTGCGGGGTTATCATCTCCCAGTATATCCATACTAACAATAAGGTTATTTACTCAACCAGGCATAAACATTTTGTTTTGTGCGTGGGAACAGCCTTAAGGTGTAAAGGGGGAGGTGGAAATAGCAATGAGGAGTATCAGCAAGAATACTCGCCGCTTTACCACAACGTGGATGAGAGGGATGAAAAACTCAAGGCAGAGATAACTCTGCCTTGAAGATAAAT  >  NC_000913/1223806‑1224261

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑