Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,206,435	0	C	T	43.4%	43.2 / 29.8	53	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (7/23);  new base T (23/0);  total (30/23)
Fisher's exact test for biased strand distribution p-value = 3.44e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTA  >  NC_000913/3206297‑3206582                                                                                                                                            |                                                                                                                                                      cAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAATa                                                                                                                                             >  1:195474/1‑149 (MQ=255)     aCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACaaaaaa‑aaaa                                                                                                                                       >  1:1015611/1‑150 (MQ=255)     aCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAATAC‑aaaa                                                                                                                                       >  1:1012330/1‑150 (MQ=255)     aCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑aaaaa                                                                                                                                      <  2:495983/151‑1 (MQ=255)       aTTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGAaaaaaaa‑aaaaa                                                                                                                                      >  1:828264/1‑149 (MQ=255)       aTTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACt                                                                                                                                    <  1:796239/151‑1 (MQ=255)       aTTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AAATTTTTCCGACAAATAa‑aaaaa                                                                                                                                      >  1:39459/1‑149 (MQ=255)         tGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAAACAaaaaa‑aaaaa                                                                                                                                      >  2:461876/1‑148 (MQ=255)           ccATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGCG‑AAATTTTCCCGAAAAAAAT‑AAAAAca                                                                                                                                    >  1:78003/1‑146 (MQ=255)               tcacTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGG‑ACTTTTTTCACCCAAATAG‑aaaaaatcgcgatgt                                                                                                                            >  2:336301/4‑141 (MQ=255)                   tGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAAAAA‑AAAAAATGGA‑GTTGTCatg                                                                                                                       >  2:475452/1‑151 (MQ=255)                     ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAAAAC‑AAAAAATGGA‑GGTGTCa                                                                                                                         >  2:818776/1‑147 (MQ=255)                           cgcAATATTCATTCTTATTTCCGCCTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATGTATAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGTCAAATAC‑AAAAACTGGA‑GTTGCCATGATGAgag                                                                                                                <  2:115574/150‑3 (MQ=255)                            gcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAAAAA‑AAAAACTGGG‑GGTGCCCTGATGAGCg                                                                                                                >  1:381344/1‑149 (MQ=255)                                tatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGG‑GATTTTTTTAAACAAAAAC‑AAAAAATGGA‑GTTGCCatggatagggaa                                                                                                              >  2:180804/1‑138 (MQ=255)                                 attcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAG‑AATTTTTTCCGACAAAAAC‑AAAAAATGGA‑ATTTCCCTGATGAGCGaaa                                                                                                             >  1:787843/1‑147 (MQ=255)                                  ttcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑GAATTTTTCAAACAAATAA‑AAAAAAAAGA‑GTTGGCATGGTTAGGGAAAAtaa                                                                                                         >  2:191491/1‑150 (MQ=255)                                    cattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAAACAAAAAA‑AAAAAATGGAGGTTGCC‑TGATGAGAGAAAg                                                                                                            >  2:399737/1‑145 (MQ=255)                                       tcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGc                                                                                                    <  1:819349/150‑1 (MQ=255)                                         ttATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AAATTTTTCCGACAAATAC‑AAAAAATGGA‑GGTGCCATGATGAGCGAAAAAAATAAACaa                                                                                                  >  1:914565/1‑150 (MQ=255)                                                cgcgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑GATTTTTCCACAAAAATAC‑AAAAAGTCGA‑GTGGGCATGGTAAGGCAAAAGAATAAACaaaaag                                                                                              >  1:1038447/1‑143 (MQ=255)                                                 gcgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCCGACAAAAAC‑AAAAAAAGGA‑GGTGCCCTGATGAGCGAAAGTAATAAACAAAAGGGAggg                                                                                         >  1:384599/1‑149 (MQ=255)                                                 gcgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGAAAAAAAC‑AAAAACTGGA‑GGTGCCATGATGAGCGAAAATAATAAACAACAAACAGTg                                                                                         >  1:733226/1‑151 (MQ=255)                                                          cACGAACTGTTAATTACATATTCCCGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATTC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATACGCAACAGGCAGTGAATAAGTTg                                                                                <  2:731275/151‑1 (MQ=255)                                                           aCGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGa                                                                               <  1:18501/151‑1 (MQ=255)                                                               aCTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACaga                                                                           <  2:649079/151‑1 (MQ=255)                                                                  gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAgaga                                                                         <  2:873958/150‑1 (MQ=255)                                                                  gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAgaga                                                                         <  2:298641/150‑1 (MQ=255)                                                                         aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGc                                                                  <  2:755681/150‑1 (MQ=255)                                                                         aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCt                                                                 <  1:556170/151‑1 (MQ=255)                                                                                 actgTGGCAAAAAATATAAAAGCACATTTGGAGTGGTATTTTGTGGCGGTG‑AATTGTTCCAGAGAAATGC‑AAAAGCTGGA‑GTTGCCATGATGTGCCAGAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGACTGTCGCTAACtt                                                            <  2:885987/145‑1 (MQ=255)                                                                                 aCGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGGGGCAGTG‑CATTTTACAATACAAATAC‑AAAAACTTGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGATATTATCGCTAACTTTa                                                          <  2:73633/150‑1 (MQ=255)                                                                                         aaaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCCAACAAAAAC‑AAAAACTTGA‑GTTGTCCTGATGAGCGGAAATAAAAAAAAAAAAGCAGTGAAGAAGTTGAAAGAGATTGTAGCTAAATTTTCCGCCa                                                    >  2:1002660/1‑148 (MQ=255)                                                                                             aaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑GATTTTTTCAGACAAAAACAAAAAATTGGG‑GTTTCTA‑CATGAGGGAAAGATATAAACAAAAAGCAGGGAAAAAAATTGCAGAGATTTTCTCTAACCTTAACCCCCTGAtttt                                             >  1:751993/1‑150 (MQ=255)                                                                                              atatAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAAAAC‑AAAAAATGGA‑GTTGCCCTGATTGGCGAAAGTAATAAACAAAAGGCAGGGAAAAAAATGACAGAGATTGTCGCTAACCTTACCGCCATGAttttt                                            >  1:994677/1‑149 (MQ=255)                                                                                                ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑GGTTTTTTTAAACCAAAAC‑AAAAAATGGA‑AGTGGCATGATGAGCGGAAGAAATAAAAAACAAGAAAGGAATAAAAAGACAAAGAATTTCGCTAAAttttaaaccaaagatt                                              >  2:757353/1‑134 (MQ=255)                                                                                                     aCCACATTTTTAGTGGTAGTTTGTGGCGGAC‑AAGTTTTTCCGAAAAAAAA‑AAAAAATTGA‑GGTGCCCTGCTGAGGGGAAGTAATAAACAACAGGCAGTGAATAAACTGAAAGAGAATGTCGCTAACCTTACCCCCACTAttt                                              >  1:611298/1‑142 (MQ=255)                                                                                                       cacaTTTTTAGTGGTAGTTTGTGGGGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATg                                   <  1:356448/151‑1 (MQ=255)                                                                                                           tttttAGTGGTAGTTTGTGGCGGTG‑GATTTTTTCCGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGGGGAAGGAAAAAACAACAGGGAGGGAATAAGTTGGCAGAGATTGTCGCTAAATTTTCCGCCCTGATTTCTACCCGAATGcc                                 >  1:343064/1‑149 (MQ=255)                                                                                                           tttttAGTGGTAGTTTGGGGGGGTG‑AATTTTTCCAGAAAAAAAA‑AAAAAGTGGT‑TTTGCCATAATGAGCAAAAATAATAAGCAACAGGCAGTGAATAAGTGGACAGAGTTTTCCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCt                                <  2:220795/150‑1 (MQ=255)                                                                                                            ttttAGGGGTAGTTTGTGGCGGGG‑ATTTTTTCAAGACAAAAAA‑AAAAACGGGA‑GTTGCAATGATGAGCGAAATTAATAAGAAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtg                               <  2:783623/150‑1 (MQ=255)                                                                                                             tttAGTGGTAGTTTGTGGCGGCG‑AAATTTTTCACACAAAAAC‑AAAAAACCGG‑GATGCCAGGATGGGACCAAGTAAAAAACAAACGGAAATGAAAAAGATTAGAGAAATTGTTGCTAACTTTAACGCCACGATTTTTTCCCCAACGCCtgat                             >  1:271007/1‑151 (MQ=255)                                                                                                                  tgttattttGTGGCGGTG‑AATTTTTCCAGACAAATCC‑AAAAACTGAA‑TTTGCAATGATGACCTAAATTAATAAGCACAAGGCAGTAAATAAGTTGAAAGAGATTGTCGCAAACTTTACCGCCATGATTTCTACCCGAATGCCtgatga                           <  2:787275/142‑1 (MQ=255)                                                                                                                  tGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GGTGCCCTGATGAGCGAAAGTAATAAGCAAAAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTTTACCCGAATGCCgggtgaag                         >  1:419800/1‑148 (MQ=255)                                                                                                                      attttGTGCGGGTG‑AATTTTTCCAGACAAAAAC‑AAAAACGGGA‑GTTGCCATGAGGAGTGAAAGAAATAAGCAACAGACAGTTAATAAGTTGAAAGAGATTGTCGCTAACTTTCCCGCCATGATTTCTACCCGAATGCCTGATGGCgtggt                     <  2:605633/148‑1 (MQ=255)                                                                                                                            gggggggagtaTTTTTCAAACCAAAAAC‑AAAAGCGGGG‑GTTGCTTGGAGGAGGGAAAGTAATAAGCAACGGGCATTAAATATGTTAACAGAGAGTGTCGCAATAGATGCCGCCATGATTTCTCCCCGAATGCCTGATGACGTGAGGGATaa               <  2:287531/141‑1 (MQ=255)                                                                                                                                     aaTTTTTCCAGACAGATAC‑AAAAACTGGA‑GTTGCGATGATGAGAGAAAGTAATAAGCAAGAGGAAGTGAATAAGTTGACAGAGATTGTCGCTAAATTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc       >  2:16876/1‑150 (MQ=255)                                                                                                                                     aaTTTTTCCAGACAAATAC‑AAAAACGGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAATTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACa      <  1:58603/151‑1 (MQ=255)                                                                                                                                     aaTTTTTCCAGACAAATAA‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaaa         <  1:1047084/148‑1 (MQ=255)                                                                                                                                     aaTTTTTCCAGAAAAATAC‑AAAAGCTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGTTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc       <  2:195202/150‑1 (MQ=255)                                                                                                                                      aTTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc       >  1:522690/1‑149 (MQ=255)                                                                                                                                          ttCCAGACAAATAA‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTa  <  1:1037796/150‑1 (MQ=255)                                                                                                                                           tCCAGACATATAC‑AAAAACTGGA‑GTTGCCATGATGCGCGAAAACAACAAGCAACAGGCAGAGAATACTCTGACAGAGATTGTCGCCAACTTTACCGATATGATCACTACCTGAATGACTGATGACGTGGAGGATAACCTAACACAGCt   >  2:730632/1‑148 (MQ=255)                                                                                                                                            |                                                                                                                                                      CAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTA  >  NC_000913/3206297‑3206582

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑