Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,875,521	0	T	C	37.5%	12.1 / 11.7	24	A28A (GCT→GCC)	yidX	putative lipoprotein YidX
Reads supporting (aligned to +/- strand):  ref base T (9/6);  new base C (9/0);  total (18/6)
Fisher's exact test for biased strand distribution p-value = 5.19e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.19e-01
Rejected as consensus: Frequency below/above cutoff threshold.

CAAACTTATATTGTTGTACTACAATTTAGATCACAAAAAGAACAATGCATAAAAAAATGACATGCGTCGGGCAGAAATCTGAAAAGGGATATCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGCTTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCTCTGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGTTGCCGATGACGCAAGATTTGTTTTAAATGCGGGGAAAAAGAAAT  >  NC_000913/3875277‑3875771                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                           cAAACTTATATTGTTGTACTACAATTTAGATCACAAAAAGAACAATGCATAAAAAAATGACATGCGTCGGGCAGAAATCTGAAAAGGGATATCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGCTTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCTCTGGtt                                                                                                                                                                                                                                                      >  1:107767/1‑251 (MQ=255)       tataTTGTTGTACTACAATTTAGATCACAAAAAGAACAATGCATAAAAAAATGACATGCGTCGGGCAGAAATCTGAAAAGGGATATCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGATTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCTCTGGTTTACCAt                                                                                                                                                                                                                                                >  2:264420/1‑251 (MQ=255)                        aTTTAGATCACAAAAAGAACAATGCATAAAAAAATGACATGCGTCGGGAAGAAATCTGAAAAGGAATCTCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGCTTAGCTACTCTTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCAACTGGCGCTGATGCTTTCAGGCTGTTTCTCGTATGCTATGGTTTccagtaacgaaaagggttggtt                                                                                                                                                                                                                               >  2:507330/1‑231 (MQ=255)                                   aaaaaGAACAATGCATAAAAAAATGACATGCGTCGGGCAGAAATCTGAAAAGGGATATCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGCTTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCTCTGGTTTCCCTTACCGCAAAGGGTAGTTCAGGAAAGTATc                                                                                                                                                                                                                    >  1:351639/1‑251 (MQ=255)                                    aaaaGAACAATGCATAAAAAAATGACATGCGTCGGGCAGAAATCTGAAAAGGGATATCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGCTTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCCGTCTTCTGCTATACCACAAAGGGTAGTTCAGGAAAGTATc                                                                                                                                                                                                                    >  1:151661/1‑250 (MQ=255)                                            aaTGCATAAAAAAATGACATGCGTCGGGCAGAAATCTGAAAAGGGATATCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGCTTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCTCTGGTTTCCCATACCGCAAAGGGAAGTTCAGGAAAGTATCAATCGCAGt                                                                                                                                                                                                           >  1:436571/1‑251 (MQ=255)                                                        aaTGACATGAGTCTGGGAGAAATCTGAAAAGTGATATCAGGCGTTAAACAGGAGGGAAAGAAGAGTATGCTATCAACGGCGTAGCTACGCGTTTAAAGGATTAAGCATGAAGTTGAATTGTAAGGGATTTTGGAAGGCTGTCGTTTTATGCCCACGGGCGCTGATGCTGTCAGGCTGTATCTCGTATGCTCTGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCa                                                                                                                                                                                               <  1:524722/251‑1 (MQ=255)                                                                          gAAATCTGAAAAGGGATATCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGCTTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCCGTCTTCTGCTTGACAGAAAAGGGTAGTTCAGGAAAGTATAAATCGAAGTCAGacacaataccgtggcgatcgcaggca                                                                                                                                                                              >  1:470570/1‑228 (MQ=255)                                                                                   gaaGGTATATCAGGCGCTAAACAGGAGGGAAAGAAGAGAATGCTTTCAACGGCTTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGCTTTTTTAAGGCTGCGGGTTTATTCCAACTGGCGCTGATGATTTCAGGCTGTTTCTCGTATGCTCTGGTTTCCCATACCGAAAAGGGTAGGTCGGGGAAGTATCAATCCCAGTTAAACCAGATCACTGGACTATCGCAGGcctaaaatagt                                                                                                                                                                     >  2:308416/2‑240 (MQ=255)                                                                                           atCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGCTTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCCCTGTTTTGCTTTACAGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAAc                                                                                                                                                             >  1:543786/1‑250 (MQ=255)                                                                                                                                          aGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCCCTGGTTTCCCATACAGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTg                                                                                                              >  1:62926/1‑250 (MQ=255)                                                                                                                                                                                tAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCTCTGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATcc                                                                         >  2:14631/1‑249 (MQ=255)                                                                                                                                                                                       ttttttAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCCCTGGTTTGCTTTAACGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCCGCAATTa                                                                 >  1:433706/1‑250 (MQ=255)                                                                                                                                                                                                      ggTTTATTCCCACTTGCGCTGATGCTTTCAGGCTGTATCTAGTATGCTCTGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCa                                                 <  1:264420/251‑1 (MQ=255)                                                                                                                                                                                                      ggTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCCGTCTTTTGCTTTACAGCAAAAGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCCCTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATAACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTc                                                  >  1:557734/1‑250 (MQ=255)                                                                                                                                                                                                             tCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCCGTCTTCTGCTTTACAAAAAAGGGAAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGAGAATCGATGGATTACCTTATCACTGATGGTGCCGAAGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGttacc                                          >  1:471342/1‑248 (MQ=255)                                                                                                                                                                                                                 aCTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCCGTCTTTTGCTTTAAAAAAAAGGGTAGTTCAGGTAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGAAAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGTTGCCGATg                                      >  1:181035/1‑251 (MQ=255)                                                                                                                                                                                                                    ggCGCGGATGCTTTCATGCTGTATCTCGTATGCTCTGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTTCCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGTTGCCGATGACg                                   <  1:427345/251‑1 (MQ=255)                                                                                                                                                                                                                           aTGCTTTCAGGCTGTATCTCGTATGCCCTGTTTTCCCTGACAGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGTTGCCGATGACGCAAGAtt                            >  1:432688/1‑251 (MQ=255)                                                                                                                                                                                                                                ttCAGGCTGTATCTCGTATGCTCTGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGTTGCCGATGACGCAAGATTTGt                         <  1:14631/249‑1 (MQ=255)                                                                                                                                                                                                                                    ggCTGTATCTCGTATGCTCTGTTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACTATATTCAGGTTGCCGATGACGCAAGATTTGtttt                      <  1:449016/248‑1 (MQ=255)                                                                                                                                                                                                                                               gTATGCTCTGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGTTGCCGATGAc                                    >  1:453530/1‑223 (MQ=255)                                                                                                                                                                                                                                                   gCTCTGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGTTGCCGATGACGCAAGATTTGTTTTAAATGCGGGGAAAAAGa     <  1:178043/250‑1 (MQ=255)                                                                                                                                                                                                                                                   gCTCTGGTTTCCCATACAGCCAAGGGTCGTTCAGTACAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGAAAAAGATAGAAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGATGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCCAAATATTCAGGTTGCCGAGGCCGCAAGATTAGTTTTAAATGCGGGGAAAAAGa     >  2:14503/1‑250 (MQ=255)                                                                                                                                                                                                                                                     tctGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGCTAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCCCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGTTGCCGATGACGCAAGATTTGTTTTAAATGCGGGGAAAAAGaact  >  2:275495/1‑249 (MQ=255)                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                           CAAACTTATATTGTTGTACTACAATTTAGATCACAAAAAGAACAATGCATAAAAAAATGACATGCGTCGGGCAGAAATCTGAAAAGGGATATCAGGCGCTAAACAGGAGGGAAAGAAGAGTATGCTTTCAACGGCTTAGCTACTCGTTTAAAGGATTAATCATGAAGTTGAATTTTAAGGGATTTTTTAAGGCTGCCGGTTTATTCCCACTGGCGCTGATGCTTTCAGGCTGTATCTCGTATGCTCTGGTTTCCCATACCGCAAAGGGTAGTTCAGGAAAGTATCAATCGCAGTCAGACACCATCACTGGGCTATCGCAGGCAAAAGATAGTAATGGAACAAAAGGCTATGTTTTTGTAGGGGAATCGCTGGATTACCTTATCACTGATGGTGCCGATGACATCGTTAAGATGCTCAATGATCCAGCACTTAACCGGCACAATATTCAGGTTGCCGATGACGCAAGATTTGTTTTAAATGCGGGGAAAAAGAAAT  >  NC_000913/3875277‑3875771

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑