Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,206,435	0	C	T	42.6%	59.7 / 36.5	54	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (3/28);  new base T (23/0);  total (26/28)
Fisher's exact test for biased strand distribution p-value = 2.39e-12
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAG  >  NC_000913/3206287‑3206585                                                                                                                                                      |                                                                                                                                                         gtgtATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCa                                                                                                                                                        <  2:87785/151‑1 (MQ=255)     aTTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGAc                                                                                                                                                     <  2:321261/150‑1 (MQ=255)           cAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑a                                                                                                                                             <  2:147496/151‑1 (MQ=255)              aaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AAATTTTTCACACAAAAAC‑aaa                                                                                                                                           >  1:604115/1‑150 (MQ=255)                cATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATGC‑AAAAAc                                                                                                                                        <  1:383870/151‑1 (MQ=255)                cATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAAc                                                                                                                                        <  2:51690/151‑1 (MQ=255)                  ttGCCATTCCCTGCTCTGGCGCCATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AAATTTTCCAAACAAATAA‑AAAAAc                                                                                                                                        >  2:975688/1‑149 (MQ=255)                       aTTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGtt                                                                                                                                 <  2:689687/151‑1 (MQ=255)                       aTTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGtt                                                                                                                                 <  1:419379/151‑1 (MQ=255)                       aTTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGCG‑AATTTTTTCCCAAAAAAAC‑AAAAAATGGAGt                                                                                                                                  >  1:287485/1‑150 (MQ=255)                         tCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAAAAC‑AAAAAATGGAGtt                                                                                                                                 >  1:164140/1‑149 (MQ=255)                              gCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCatga                                                                                                                          <  2:903379/151‑1 (MQ=255)                              gCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCatg                                                                                                                           <  2:486526/150‑1 (MQ=255)                                   ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGAAAAAAAC‑AAAAACAGGAGTTGCCatga                                                                                                                          >  2:219360/1‑146 (MQ=255)                                   ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑g                                                                                                                     <  2:1011128/150‑1 (MQ=255)                                     cgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGa                                                                                                                  <  2:743889/151‑1 (MQ=255)                                       cAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGaaa                                                                                                                <  2:796391/151‑1 (MQ=255)                                        aaTATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAg                                                                                                               <  1:1098063/151‑1 (MQ=255)                                         atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGt                                                                                                              <  1:37731/151‑1 (MQ=255)                                              cattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AAATTTTTCAGACAAAAAC‑AAAAAATGGAGTTGCCATGATGA‑GCGAAAataata                                                                                                          >  1:804148/1‑150 (MQ=255)                                                 tcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAAACAAAAAA‑AAAAAATGGAGTTTCCATGATGA‑GGGGAAAgaataa                                                                                                         >  1:1102493/1‑148 (MQ=255)                                                  cTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGG‑AATTTTTTCAAAAAAAAAC‑AAAAACATGAGGTGTCATGATGA‑GGGGAAGTAATAAACa                                                                                                      >  1:331104/1‑150 (MQ=255)                                                        ttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGc                                                                                                <  2:1081457/150‑1 (MQ=255)                                                         tCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCa                                                                                               <  1:1095238/150‑1 (MQ=255)                                                            cgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑GAATTTTTCAGACAAAAAA‑AAAAACTGGGGTTGTCATGATGA‑GCGAAAATAAAAAGCaaaaagga                                                                                               >  1:49075/1‑141 (MQ=255)                                                                gATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGGAATAAGCAACAAGCAGTGAATa                                                                                        >  2:30943/1‑150 (MQ=255)                                                                   tCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAAACAAAAAC‑AAAAAATGGAGTTGCCATGTTGA‑GCGAAAAGAAAAAACAACAAGCAGTGAATAAGtt                                                                                    >  1:1102338/1‑151 (MQ=255)                                                                     aCGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑GATTTTTTTAAACCCATACAAAAAAATTACGTTGCC‑TGGTAG‑GGGTAAGTAATTAACAACAAGCAGGGAATAAggt                                                                                    >  1:846420/1‑147 (MQ=255)                                                                         aCTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACaga                                                                              <  1:890409/151‑1 (MQ=255)                                                                            gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAgaga                                                                            <  2:1075130/150‑1 (MQ=255)                                                                               aaTTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAAAAA‑AAAAAATGGAGTTTGCATGGTGA‑GCGAAAATAATAAACAACAAGCAGTGAATAAATTGACAGAGATTGt                                                                        >  1:57159/1‑151 (MQ=255)                                                                                 ttACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AAATTTTTCAAAAAAAAAA‑AAAAAAAGGAGTTGTCATGGTGG‑GGGAAAATAATAAAAAAAAAGCAGTGAAAAAAGTGAAAgaga                                                                            >  1:804911/1‑145 (MQ=255)                                                                                    cATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTa                                                                   <  2:106425/151‑1 (MQ=255)                                                                                     atatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCCA‑AAAAAAAA‑AAAAAATGGAGTTGCCATGATGA‑GGGGAAGAAATAAAAAAAAGGGAGTGAAAAAGGTGACAGAGATTGTCGCTa                                                                   >  1:583060/1‑150 (MQ=255)                                                                                       atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACt                                                                <  2:339617/151‑1 (MQ=255)                                                                                        ttCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑GATTTTTTCAGAAAAAAAA‑AAAAAATGGAGTTGGCATGATGA‑GGGAAAATAATAAACAACAGGCAGGGAATAAATTGACAGAGATTGTTGCTAACtt                                                               >  1:966107/1‑151 (MQ=255)                                                                                         tCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑GAATTTTTCAGACCAAAAA‑AAAAACATGAGGTGGCATGATGA‑GGGGAAATAAAAAACAAAAAGGAGAGAATAAATTGACAGAGATTGTCGCCAACttt                                                              >  1:27003/1‑151 (MQ=255)                                                                                         tCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGCG‑AAATTTTTTAAAAAAAAAA‑AAAAAATGGGGGTGTCATGATGA‑GGGAAAGGAATAAAAAACAAGCAGGGAATAAAATGAAAGAGATTGTTGCTAAAttt                                                              >  1:931278/1‑151 (MQ=255)                                                                                         tCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAG‑AATTTTTTCCGACAAATAA‑AAAAAATTGAGTTGCCATGGTGA‑GCGAAAAGAATAAAAAAAAGGCAGGGGATAAGATGTCAGAGATTGTTGCTAAAttt                                                              >  2:193628/1‑151 (MQ=255)                                                                                          cACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACttt                                                              <  1:905596/150‑1 (MQ=255)                                                                                            cGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAATAC‑AAAAAATGGGGGTGCCATGATGA‑GGGAAAGGAATAAGCAACAGGCCGGGGATAAGTTTACAGAGATTGTCGCCaaact                                                               >  2:993369/1‑144 (MQ=255)                                                                                                  cAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AAATTTTTCCGACAAAAAC‑AAAAACTTGGGGTGGCATTCTGAGGGGAAAGAAATAA‑AAAAAAGCAGTAAATAAATTGTCAAAAATTTTACCTTACATTACCCCCacg                                                     >  2:886469/1‑149 (MQ=255)                                                                                                   aaaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCCGACAAAAAC‑GGAAAATGGAGGTGCCATGAAGG‑GCGAAAGTAATAAACAAAAGGCAGGGGAAAAATTTACAGAGATTTTCGCTCACTTTACCGCCCTg                                                     >  2:1055148/1‑150 (MQ=255)                                                                                                   aaaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAGACAAATAC‑AAAAACTGGAGTTGGCATGATGA‑GCGAAAGTAATAAGCAACAAGCAGTGAATAAGTTGAAAGAGATTGTTGCTAACTTTACCGCCATg                                                     >  2:192581/1‑150 (MQ=255)                                                                                                        atatAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTTCAAACAAAAAC‑AAAAAATGGAGGTGCCATGATGA‑GGGAAAGGAATAAACAAAAGGCAGGGAATAAGTTGACAGAGATTGTCGCTAAATTTACCGCCCTGAttttt                                               >  1:419578/1‑149 (MQ=255)                                                                                                             aaaCCACATTTTTAGTGGTATTTTGTGGCGTTA‑AATTTTTCCAAAAAAATAA‑AAAAACTGGAGTTGCCATGATGA‑GCAAAAGTAATAAGCAACAGGCAGTGAATAAGTGGACAGAGATTGTCGCTAATTTTACCGCCATGATTTCTACCCg                                          <  1:123292/151‑1 (MQ=255)                                                                                                                   caTTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTCCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGTTTGTCGCTAACTTTACCGCCATGATTTCTACCCGAAt                                       <  2:549959/148‑1 (MQ=255)                                                                                                                   caTTTTTAGTGGTAGTTTGTGGCGGTG‑AAATTTTTCAGACAAAAAC‑AAAAAATGGAGTTGCCAAGGTGG‑GCGGAAGGAAAAAACAACAGGCAGGGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTTTTCCCGAAAGcc                                    >  1:772002/1‑151 (MQ=255)                                                                                                                      ttttAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAA‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAAAAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtg                                  <  2:650530/150‑1 (MQ=255)                                                                                                                             ggTAGTTTGTGGGGGTG‑AATTTTCCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGG‑GCGAAATTAATAAGCAACAGGCAGTGAATAAGTTGACAGGGATTGTCGCTACCTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgt                           <  2:927086/150‑1 (MQ=255)                                                                                                                                   ttGTGGCGGTA‑AATTTTCCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa                     <  1:134383/150‑1 (MQ=255)                                                                                                                                          ggTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTa              <  2:388705/150‑1 (MQ=255)                                                                                                                                          ggTA‑AATTTTCCCAGAAAAATAA‑AAAAACTGGAGTTGCAATGAGGA‑GCAAAAGTAATAAGCACCAGGAAGTAAATATGTTGAAAGAGATTGTCGCTAATTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTa              <  1:975560/150‑1 (MQ=255)                                                                                                                                                  ttttCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGc       >  2:929458/1‑150 (MQ=255)                                                                                                                                                      ccAGAAAAATAA‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAg  <  2:1114118/151‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                         GTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTG‑AATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAG  >  NC_000913/3206287‑3206585

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑