Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,206,435	0	C	T	50.9%	32.0 / 74.7	53	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (2/24);  new base T (27/0);  total (29/24)
Fisher's exact test for biased strand distribution p-value = 4.17e-13
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.48e-05

ATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAA  >  NC_000913/3206291‑3206583                                                                                                                                                  |                                                                                                                                                      aTTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGAc                                                                                                                                                  >  2:291839/1‑150 (MQ=255)     ctcAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGG‑GAATTTTTCCAGACaaa                                                                                                                                               >  2:628689/3‑149 (MQ=255)       cAAAACATTGTCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACa                                                                                                                                           <  2:662383/151‑1 (MQ=255)               tGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAATAAAAAAAAT‑gg                                                                                                                                  >  2:238806/1‑151 (MQ=255)               tGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGG‑GAATTTTTTCATACAAATAaaaaaa                                                                                                                                       >  1:275124/1‑147 (MQ=255)                   aTTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGtt                                                                                                                              <  2:65273/151‑1 (MQ=255)                    ttCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGAAAAAAAAAAAAAAT‑AGAGtt                                                                                                                              >  1:31395/1‑150 (MQ=255)                          gCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCatg                                                                                                                        <  1:840577/150‑1 (MQ=255)                               ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGc                                                                                                                  <  1:262028/151‑1 (MQ=255)                                gcgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGG‑GAATTTTTTTCAAAAAATAAAAAAAAA‑GGAGGTTGCATGATGAggg                                                                                                                 >  1:920029/1‑149 (MQ=255)                                     atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAACAAAAACT‑GGAGGTGGCATGATTAGCgga                                                                                                               >  2:14493/1‑146 (MQ=255)                                      tatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGAATTTTTTAAACAAAAAAAAAAAATT‑GGGGTTG‑CATGATGAggggaa                                                                                                              >  1:841854/1‑143 (MQ=255)                                         tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCCGACAAAAACAAAAAAA‑GGGGGTGGCATGATGGGCGGAAGaaa                                                                                                          >  2:778773/1‑149 (MQ=255)                                          cattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGtaata                                                                                                        <  1:157859/150‑1 (MQ=255)                                              cTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAAATTTTTCAGAAAAATAAAAAAAAT‑TGAGGTGTCATGATGAGGGAAAGTAATAAgaa                                                                                                    >  2:314075/1‑148 (MQ=255)                                                  ttttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAAAAAAAAAT‑GGAGGTGCCATGATGAGCGAAAGTAAAAAacaaca                                                                                                 >  2:967643/1‑149 (MQ=255)                                                    ttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAAGTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGc                                                                                              <  1:403377/150‑1 (MQ=255)                                                      cgcgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAg                                                                                            <  1:297543/150‑1 (MQ=255)                                                            gATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGTCAGTGAATa                                                                                      <  2:996824/150‑1 (MQ=255)                                                               tCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAAATTTTTCAACAAAATAAAAAAACT‑AGAGTTTTCATGATGAGCGGAAGAAAAAAACAAAAAGAAGTGGATaaagt                                                                                  >  1:321128/1‑148 (MQ=255)                                                                   gAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GGATTTTTTCCCAAAAATAAAAAAAAT‑GGAGGTGCCATGGTGAGGGAAAGGAATAAGGAAAAAGGAGGGAATa                                                                                      >  2:632734/1‑143 (MQ=255)                                                                   gAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAAAAAAAAAT‑GGAGGTGCCATGATTAGCGAAAGAAATAAACAAAAGGCAGGGAATaa                                                                                     >  2:311790/1‑144 (MQ=255)                                                                         ttAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt                                                                         <  1:567189/150‑1 (MQ=255)                                                                               aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAAAAAAATAAAAAAACT‑GGAGTTGTCATGATGAGCGGAAGTAATAAACAAAAAGCAGAGAATAAGATGACAGAGATTGtag                                                                    >  1:157877/1‑147 (MQ=255)                                                                                 atatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAAAAAAAAAC‑GGAGGTGCCCTTATGAGCGAAAGTAATAAACAAAAAGCAGGGAAAAAGATGAGAGAGATTGgcgc                                                                   >  2:816493/1‑148 (MQ=255)                                                                                   atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCCGACAAATACAAAAACT‑GGAGGTGCCATGATGAGCGGAAGGAATAAGCAAAAGGCAGTGAAAAAATTGACAGAGATTGTCGCTaa                                                                >  2:532480/1‑149 (MQ=255)                                                                                   atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTGAc                                                               <  1:569897/150‑1 (MQ=255)                                                                                      cACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTa                                                           <  2:102953/151‑1 (MQ=255)                                                                                       aCGGTGGCAAAAAATATAAAACCACATTTATAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTAc                                                          <  2:671684/151‑1 (MQ=255)                                                                                         ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCg                                                        <  1:483458/151‑1 (MQ=255)                                                                                           tGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAAATTTTCCAAAAAAATACAAAAACT‑GGAGTTTGCATGATGAGCGAAAGGAATAAACAAAAAGCAGTGAAAAAATTGACAGAGATTGTTGCTAACTTTACCGcc                                                      >  1:43124/1‑151 (MQ=255)                                                                                              cAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCCGACAAATACAAAAAAT‑GGAGGTGCCATGATGAGGGGAAGGAAAAAACAAAAAGCAGGGAATAAGGTGACAGAGATTTTTGCTAACTTTACCGcc                                                      >  2:402662/1‑148 (MQ=255)                                                                                              cAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCCGACAAAAAAAAAAACT‑TGAGTTGGCATGATGAGGGAAAAGAAAAAACAACAAGCAGTGAATAAAATGGCAGAGAATGTCGCTAACTTTTCCGcc                                                      >  2:767133/1‑148 (MQ=255)                                                                                                 aaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAAATTTTTAAAAAAAATACAAAAAAC‑AGGGTTGGCCTGGTGAGGGAAAGAAATAAACAACAAGGAAAGAATAAGATGACAGAGATTGTCGCTAAATTTACCGCCATGaat                                                >  1:287483/1‑149 (MQ=255)                                                                                                    atatAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GGATTTTTTCCCACAAAAACAAAAAAT‑TGGGGTGTCATGATGAGCGGAAATAATAAACAACAAGCAGTGAATAAGGTGAGAGAGATTGTCTCCAAATTTACcccccaaattt                                               >  2:60194/1‑142 (MQ=255)                                                                                                        aaaaCCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGAAAAATATAAAAAAT‑TGAGTTTGCATGATGAGGGGAAGGAATAAACAACAAGAAGTGAAAAAAATGACAGAGAATTTCGCTAAATTTTAACCCAAGATTTCt                                             >  1:765743/1‑147 (MQ=255)                                                                                                         aaaCCACATTTTTAGTGTTATTTTGTGGCGGT‑GAATTTTTCCAGACAAATAAAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCATTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCg                                        <  2:720202/151‑1 (MQ=255)                                                                                                         aaaCCACATTTTTAGTGGTAGTTTGTGGCGGT‑GATTTTTTCCAGAAAAATAAAAAAACT‑GGATTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTGGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCg                                        <  1:661363/151‑1 (MQ=255)                                                                                                         aaaCCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAATAAAAAAAAT‑GGAGGTGCCATGATGAGCGAAAGGAATAAAAAACAGGCAGGGAATAAGATTACAGAGATTGTCGCTAAATTTAACGCCATGATTTTTAcccc                                        >  2:383507/1‑150 (MQ=255)                                                                                                              acaTTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCCGACAAATACAAAAAAT‑GGAGGTGCCACGATGGGCGGAAAGAATAAACAAAAGGCCAGGAAAAAAATTAAAGAAATTGTCGCTAACATTACCGCCAAGATTTCTACCCggaag                                    >  2:264034/1‑146 (MQ=255)                                                                                                                   tttAGTGGTAGTTTGTGGCGGT‑GGATTTTTTCTGACGTATAAAAAAAATGGGGGTTGCC‑TGGGGGGGGGAAGGAAAAAACAACAAGAAGGGAATAAATTTGAAGAGAATTTTGCTAAATTTACCGCCCTGATTTTTATCCGaa                                      >  1:136326/1‑143 (MQ=255)                                                                                                                   tttAGTGGTAGTTTGTGGCGGT‑GGATTTTTTCAAACAAAAAAAAAAAAT‑TGGGTTGGCATGATGGGGGGGAGAAATAATCAACAAGCAGGGCATAAGGTGAAAGAGAGTGTTGCTAACTTTATCGCCCTGATTTTTACCCGAATGGCt                                 >  1:960140/1‑148 (MQ=255)                                                                                                                    ttAGTGTTAGTTTGTGGCGGT‑GAATTTTTCCAAACAAATACAAAAACT‑GGAGTTGCCATGATGAGCAAAAGTAATAAGCAACAGGAAGGGAAAAAGTTGACAGATATTGTCGTTAACTTAACCGCCATGATTTCTACCCGAATGCCtga                               <  1:437443/149‑1 (MQ=255)                                                                                                                    ttAGTGGTAGTTTGTGGCGGT‑GAATTTTTTTAGACAAAAACAAAAAAT‑GGAGGTGGCCTGATGAGCGAAAGGAATAAGCAACAAGCAGCGAAAAAGTTGACAGAGATTGTCGCTAACTTTAACGCCATGATTTTTTCCCGAATGCCtgat                              >  2:999160/1‑150 (MQ=255)                                                                                                                    ttAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCCGACAAAAACAAAAACT‑GGGGTTGCCCTGATGAGCGGAAGGAATAAACAACAGGCAGGGAATAAGTTGACAGAGATTGTCGCTAACTTTACCCCCCTGATTTTTACCCCAATGCCtgat                              >  2:996884/1‑150 (MQ=255)                                                                                                                    ttAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtgat                              <  2:842004/150‑1 (MQ=255)                                                                                                                         ggTATTTTGTGGCGGT‑GATTTTTTCCAAACAAATACAAAACCT‑GGAGTTGCCATGATGAGCGAAAGTAATAACCAACAGGCAGTAAATAAGTTGACAGAGATGGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtgatga                            <  1:270674/147‑1 (MQ=255)                                                                                                                                 gtgGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTAACGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATac                <  1:232564/151‑2 (MQ=255)                                                                                                                                      ggT‑GAATTTTTCCAAACAAATACAAAAACT‑GGAGTTGCCATGATGAGCAAAAGTAATAAGCAACAGGCAGTGAATAAGTTGAAAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaa           <  1:314025/151‑1 (MQ=255)                                                                                                                                       gttaaaTTTTTCCAGAAAAATACAAAAACT‑GGAGTTGCCATAATGACAGAAATAAATAAGCAACAGGCATGAAATAAGTGGACAGAGATTGTCGGTATCTTGACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaa           <  1:183389/147‑1 (MQ=255)                                                                                                                                           aaTTTTTCCAGACAAATAAAAAAACT‑GGAGTTGCCATGAGGAGGAAAAGAAAAAACAAACAGGCAGAGAATAAGTTGAAAGTGTTGGTCGCTATCTGTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc        <  1:83306/150‑1 (MQ=255)                                                                                                                                              ttttCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGc     <  2:820538/150‑1 (MQ=255)                                                                                                                                                ttCCAGAAAAATAAAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGTTTTTCGCTACCTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTa   <  2:128582/150‑1 (MQ=255)                                                                                                                                                  ccAGAAAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAATTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTaa  <  2:834550/149‑1 (MQ=255)                                                                                                                                                  ccAAACAAATACAAAAACG‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAATTTGACAGAGATTGTCGCTAATTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTaa  <  1:893801/149‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                      ATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACT‑GGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAA  >  NC_000913/3206291‑3206583

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑