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%	40.5 / 86.7	53	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (1/25);  new base T (27/0);  total (28/25)
Fisher's exact test for biased strand distribution p-value = 2.88e-14
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.69e-10

ATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAG  >  NC_000913/3206291‑3206585                                                                                                                                                 |                                                                                                                                                         aTTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑Ca                                                                                                                                                   <  1:194775/151‑1 (MQ=255)  tttCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAGAATTTTTcccg                                                                                                                                                       >  1:496678/1‑145 (MQ=255)       cAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCAGA‑Caaa                                                                                                                                                 >  1:162757/1‑147 (MQ=255)       cAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGA‑AAAAAAc                                                                                                                                              >  2:809002/1‑150 (MQ=255)        aaaaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCATA‑AAAATACa                                                                                                                                             >  2:868256/1‑150 (MQ=255)           aCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCAA‑CAAATaaaaaa                                                                                                                                          >  2:184761/1‑150 (MQ=255)             aTTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACt                                                                                                                                       <  1:1150262/151‑1 (MQ=255)                  cATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGt                                                                                                                                  <  1:98731/151‑1 (MQ=255)                   aTTCGCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGA‑CAAATAAAAAAAATTGAggt                                                                                                                                 >  1:643033/1‑149 (MQ=255)                   aTTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGA‑CAAATACAAAAAATGGAggt                                                                                                                                 >  1:74253/1‑149 (MQ=255)                     tCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTg                                                                                                                                <  2:285109/150‑1 (MQ=255)                     tCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGA‑AAAAAAAAAAAAATgg                                                                                                                                     >  2:616030/1‑145 (MQ=255)                            tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGA‑CAAATACAAAAAATGGAGTTTcc                                                                                                                              >  1:630969/1‑145 (MQ=255)                                  gcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGaa                                                                                                                 <  2:1185719/151‑1 (MQ=255)                                       attcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGA‑CAAATACAAAAAATGGAGTTTGCA‑TGATGAGCGaaa                                                                                                                >  2:922354/1‑147 (MQ=255)                                         tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGtaat                                                                                                           <  1:807865/150‑1 (MQ=255)                                            ttcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCAGA‑CAAAAAAAAAAACTGGGGGTTTCA‑TGATGAAAGAAAGtaataa                                                                                                         >  1:691395/1‑149 (MQ=255)                                               ttATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCAGA‑CAAAAACAAAAAATGGAGTTGCCA‑TGATGAGCGAAAGaaataaaaaa                                                                                                     >  1:56411/1‑146 (MQ=255)                                                tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCa                                                                                                      <  1:781143/148‑1 (MQ=255)                                                      cgcgTTGATTCACGAACTGCTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGt                                                                                             <  2:901852/151‑1 (MQ=255)                                                            gATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATa                                                                                        <  1:945760/150‑1 (MQ=255)                                                              ttCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGA‑CAAATACAAAAACTGGAGTTGGCA‑TGATGAGCGAAAGTAATAAACAAAAGGCAGGGAATa                                                                                        >  1:323229/1‑148 (MQ=255)                                                               tCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGA‑CAAAAAAAAAAAATGGAGTTGTCC‑TGATGAGCGAAAATAATAAGAAACAAGGAGTggaaaa                                                                                       >  1:346585/1‑143 (MQ=255)                                                                cACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGtt                                                                                    <  1:79781/150‑1 (MQ=255)                                                                     aCTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGA‑CAAATACAAAAAATGGGGTTGCCA‑TGATGAGCGGAAGTAAAAAACAACAGGCAGTGAATaa                                                                                       >  1:830233/1‑142 (MQ=255)                                                                       tGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAAGCAAATAAAAAAACGGAAATAGCCA‑‑GAAGAGCGCAAGAAAAAAGAAAAAAGCAGCtaataa                                                                                       >  1:979640/1‑140 (MQ=255)                                                                        gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACagag                                                                             <  2:395326/149‑1 (MQ=255)                                                                          tAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAA‑CAAAAAAAAAAAATGGGGTTGGCA‑TGATGAGCGAAAAAAAAAAAAAAAAGGCAGGGAATaaagttaca                                                                                >  2:889/1‑137 (MQ=255)                                                                          tAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGCGAATTTTTTCCGG‑CAAATAAAAAAAATGGTGGTTCCACTGA‑GAGCGAAAGGAAAAAACAAAACGCAGAGGAAAAGTTg                                                                                   >  1:1015238/1‑141 (MQ=255)                                                                                   atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAAc                                                                 <  2:254111/150‑1 (MQ=255)                                                                                   atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACt                                                                <  2:302607/151‑1 (MQ=255)                                                                                     tCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACtt                                                               <  2:430855/150‑1 (MQ=255)                                                                                      cACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTAAGA‑AAAAAAAAAAAAATGGAGGTTGCA‑TGAAGAGCGGAAGTAATAAAGAACAAGCAGGGGATAAAATTGCAGAGAATTGCGCCAACttt                                                              >  2:960860/1‑150 (MQ=255)                                                                                                aaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGAt                                                   <  1:809022/151‑1 (MQ=255)                                                                                                 aaaaTATAAAACCACATTTTTAGTGGTATTTTGGGGCGGTGAATTTTTCCAGA‑AAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCTCTATTTTTACCGCCATGAtt                                                  <  2:907639/151‑1 (MQ=255)                                                                                                   aaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGA‑CAAATACAAAAACTGGAGGTGGCA‑TGATGAGCGAAAGGAAAAAACAAAAAGCAGGGAAAAAATTGACAGAGAATTTTGCTAACttttacccccaggtttt                                                >  2:456023/1‑137 (MQ=255)                                                                                                     tataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGA‑AAAATAAAAAAAAAGGAGGTGACA‑TGATGAGGGAAAGTAAAAAACAAAAAGGAGGGAATAAATTGACAGAGATTGGCGCTCACTTTTCCGCCATGAttttt                                               >  1:575449/1‑148 (MQ=255)                                                                                                      ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTAc                                             <  1:855635/151‑1 (MQ=255)                                                                                                        aaaaCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGA‑CAAATAAAAAAAATGGAGTTGGCC‑TGATGAGCGGAAGGAATAAAAAAAAGGCAGGGAATAAGATGACAGAGATTTTCGCTAACTTTACCGCCATGATTTTTTccc                                           >  1:537363/1‑151 (MQ=255)                                                                                                            ccACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACGGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGaa                                        <  1:686504/150‑1 (MQ=255)                                                                                                                aTTTTTAGTGGTAGTTTGTGGCGGGGAATTTTTTCAGA‑CAAAATAAAAAAATGGAGGTGTCC‑TGATGAGAGGAAATAATAAAAAAAAAGGAGGGAATAAGTTGACCAGGATTTTCGCTAAATTTTACGCCATGATTTTTTCCCCAAttgc                                    >  2:920049/1‑147 (MQ=255)                                                                                                                 tttttAGTGGTAGTTTGTGGCGGTGGATTTTTTCAGA‑CAAAAACAAAAAATGGGGTTGCCA‑TGATGAGGGGAAAGAAAAAACAACAAGCAGTGAATAAATTGAAAGAGAATGTCGCTAACTTTACCGCCCTGATTTTTACCCCAATGcccg                                  >  2:769797/1‑149 (MQ=255)                                                                                                                   tttAGTGGTAGTTTGTGGCGGTGGATTTTTTCAGA‑AAAATACAAAAAATGGAGTTGGCA‑TGATGGGCGAAAGGAATAAAAAAAAGGCAGTGAATAAGTTGACAGAGAATTTCGCTAAATTTTCCGCCCTGATTTTTACCCGAAAGACtga                                 >  2:589941/1‑150 (MQ=255)                                                                                                                    ttAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCAAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtgat                                <  1:112389/150‑1 (MQ=255)                                                                                                                    ttAGTGGTAGTTTGTGGCGGGGAATTTTTTCAGA‑AAAAAAAAAAAAATGGGGGTTCCA‑TGATGGGGGGAAGGAAAAAACAAAAGGCCGGGAATAAAATGACAGAGATTGTTGCTAACTTTAACCCCCTGAATTTTACCCCAAAGCCt                                   >  2:762987/1‑147 (MQ=255)                                                                                                                        tGGTAGTTTGTGGCGGTGAATTTTTTCAGA‑CAAAAAAAAAAAATGGAGGTGGCA‑TGATGAGGGGAAGGAAAAAAAAAAAAGCAGTGGATAAGATGAAAGAGATTGTCGCTAACTTTAACCCCATGATTTTTACCCGAATGCCTGATGACg                            >  2:1163752/1‑150 (MQ=255)                                                                                                                         ggTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgt                           <  1:885043/150‑1 (MQ=255)                                                                                                                           tAGTTTGTGGCGGTGAATTTTTTCAGA‑CAAATACAAAAAATGGAGTTGGCA‑TGATGAGCGAAAGTAATAAACAAAAAGCAGGGAATAAAATGACAGAGAGTGTAGCTAAATTTACCGCCATGATTTTTAACCGAAAGCCTGATGACgggg                         >  2:338973/1‑150 (MQ=255)                                                                                                                           tAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgtg                          <  2:23633/149‑1 (MQ=255)                                                                                                                              tttGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGATTTGCCA‑TGATGAGCGAAAGTAATAACCAACAGGCAGTGATTAATTTGACAGAGATTGTCGCTATTTTTACCGCCATGATTTCTTCCCGAATGCCTGATGACgtggt                        <  2:514295/148‑1 (MQ=255)                                                                                                                                tgtgGGGGTGAATTTTGCCAAA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAAAAAGCAACAGGCAGTGAATAAGTTGACAGGGATTGTCGTTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGAt                    <  1:1086009/150‑1 (MQ=255)                                                                                                                                   ggCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAAc                <  1:428111/151‑1 (MQ=255)                                                                                                                                     cGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACt               >  1:1016649/1‑150 (MQ=255)                                                                                                                                          aaTTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACa         <  1:208137/151‑1 (MQ=255)                                                                                                                                                 ccAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTaa    >  1:496860/1‑149 (MQ=255)                                                                                                                                                 ccAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAg  <  1:939595/151‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                         ATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGA‑CAAATACAAAAACTGGAGTTGCCA‑TGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAG  >  NC_000913/3206291‑3206585

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑