Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,206,435	0	C	T	43.6%	64.7 / 26.5	55	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (6/25);  new base T (24/0);  total (30/25)
Fisher's exact test for biased strand distribution p-value = 2.42e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAA  >  NC_000913/3206287‑3206584                                                                                                                                                     |                                                                                                                                                       gtgtATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCa                                                                                                                                                      <  1:612365/151‑1 (MQ=255)   gtATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGa                                                                                                                                                    <  1:635251/151‑1 (MQ=255)    tATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAGAAATTTTTCAGa                                                                                                                                                    >  1:733452/1‑150 (MQ=255)     aTTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACa                                                                                                                                                  <  2:985962/151‑1 (MQ=255)         cGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAt                                                                                                                                               <  1:792134/150‑1 (MQ=255)                 aTTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACt                                                                                                                                      <  2:468696/151‑1 (MQ=255)                 aTTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGAACAAAACaaaaa                                                                                                                                        >  1:415230/1‑149 (MQ=255)                   tGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGAATTTTTTCAGACAaaaaaaaaaaa                                                                                                                                       >  1:1031837/1‑147 (MQ=255)                      cATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTAGACAAATACaaaaaaagg                                                                                                                                    >  1:916201/1‑144 (MQ=255)                      cATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑Gt                                                                                                                                <  1:433259/151‑1 (MQ=255)                       aTTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGAaaaaaaaaaaaaat                                                                                                                                      >  1:355342/1‑143 (MQ=255)                              gCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCatg                                                                                                                         <  2:819310/150‑1 (MQ=255)                                tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAATACAAAAAATGGA‑GTTGCCattat                                                                                                                       >  2:835003/1‑150 (MQ=255)                                   ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCatgatg                                                                                                                      <  2:355411/148‑1 (MQ=255)                                    gcgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAACAAAAACTGGA‑GGTGGCatgatggggg                                                                                                                  >  2:586212/1‑147 (MQ=255)                                           attcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAACCTGGA‑GTTGCCATGATGAGCGAAAGtaa                                                                                                           <  2:291153/151‑1 (MQ=255)                                           attcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGtaa                                                                                                           <  1:581632/151‑1 (MQ=255)                                              cattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGACAAATACAAAAAATGGA‑GGTGCCATGATGAGCGAAAGgaata                                                                                                         >  2:141189/1‑150 (MQ=255)                                                ttcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATAAAAAAAATGGA‑GTTGGCCTGATGAGCGAAAAaaataa                                                                                                        >  1:270508/1‑149 (MQ=255)                                                    tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCa                                                                                                     <  2:445101/148‑1 (MQ=255)                                                      ttttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGAATTTTTCCAGACAAATACAAAAACAGGA‑GTTGTCATGATAAGCGAAAATAATAAGCAACAg                                                                                                 >  2:418382/1‑150 (MQ=255)                                                        ttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGA‑GTTTGCCTGATGAGCGaaaagaaaaaacaaaa                                                                                                  >  2:229462/1‑134 (MQ=255)                                                          cgcgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAg                                                                                             <  2:1046355/150‑1 (MQ=255)                                                            cgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGa                                                                                          <  2:822588/151‑1 (MQ=255)                                                             gTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa                                                                                         <  2:580589/151‑1 (MQ=255)                                                               tGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAAt                                                                                        <  1:820916/150‑1 (MQ=255)                                                                gATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAAAAAAAAAATGGA‑GTTGCCATGATGAGGGAAAGGAATAAAAAACAAGGAGGGAATa                                                                                       >  2:1032377/1‑150 (MQ=255)                                                                     aCGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTTACTTTTTTTCAAAAAATAAAAAAACCTGA‑GTTGGGATGGTTAAAGTAAAGAAAAAGCAACAAGGAGGGAATaa                                                                                      >  1:681529/1‑146 (MQ=255)                                                                     aCGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAAAAAATACAAAAAATTGAGGTTGCC‑TGATGAGGGAAAGTAATAAAAAACAAACAGTGAaaaa                                                                                      >  1:824350/1‑146 (MQ=255)                                                                      cGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCAAACAAAAACAAAAAATGGA‑GTTGCCATGATGAGCGAAAATAATAAACAAAAAGCAGGGAATaa                                                                                      >  2:534262/1‑145 (MQ=255)                                                                        aaCTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGAATTTTTTCAGACAAAAACAAAAACTGGA‑GGTGGCATGATGAGCGGAAGTAATAAACAACAAGCAGTGAATaaagtg                                                                                  >  2:454085/1‑143 (MQ=255)                                                                            gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACagag                                                                            <  1:1016037/149‑1 (MQ=255)                                                                            gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt                                                                          <  1:314788/151‑1 (MQ=255)                                                                              tAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAtt                                                                         <  2:446721/150‑1 (MQ=255)                                                                                    cATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTa                                                                  <  1:928775/151‑1 (MQ=255)                                                                                    cATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAACAAAAACAAAAAATGGA‑GTTGCCCTGATGAGGGAAAGTAATAAGAAAAAGGCAGGGAAAAAATTGACAGAGATTGt                                                                       >  1:1003621/1‑146 (MQ=255)                                                                                          cACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTa                                                            <  1:525550/151‑1 (MQ=255)                                                                                                          ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTCGACAAAAACAAAAAATGGG‑GGTGCCATGATGGGGGAAAGGAAAAAACAAAAAGCAGGGAATAAGTTGACAGAGATTTTTGCTAACTTTACCGCCATGATTTCt                                              >  2:130029/1‑149 (MQ=255)                                                                                                          ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAATACAAAAAATGGA‑GTTGCCATGATTAGCGAAAGTAATAAACAAAAAGCAGGGAATAAGTTGACAGAGAATGTCGCTAACTTTACCGCCCTGAttttt                                              >  2:925921/1‑147 (MQ=255)                                                                                                          ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAACTGGA‑GTTTTCATGATGAGAGGAAGTAATAAACAAAAGGCAGTGAATAAGTTGACAGAGATTTTTGCCAAATTTAACGCCCTGAttttt                                              >  2:826416/1‑147 (MQ=255)                                                                                                             aaaCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCACACAAATACAAAAAATGGA‑GTTGGCATGGTGAGCGAAAGAAATAAACAAAAAAGAATGAAAAAAGTTACCGAGATTGTCGCTAAATTTTCCCCCAAAATTTTTAcccc                                         >  1:238224/1‑150 (MQ=255)                                                                                                             aaaCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGAAAAATACAAAAACGGGT‑GTTGCCAGGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAGGTTGACAGAGATTGTCGTTAACTTTACCGCCATGATTTCTACCCg                                         <  1:984240/151‑1 (MQ=255)                                                                                                              aaCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGAAAAAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTACCTTTACCGCCATGATTTCTACCCGa                                        <  1:174128/151‑1 (MQ=255)                                                                                                                ccACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAACTGGA‑GGTTTCATGATGGGCGAAAGTAAAAAGAAAAAAGCAGTGAAAAAATTTAAAGAGATTGTCGCCAACTTTAACGCCATGATTTTTACCCgca                                       >  1:39587/1‑148 (MQ=255)                                                                                                                  acaTTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAAATGGA‑GGTGCCCTGATGAGCGAAAGTAATAAGCAAAAAGGAGTGGATAAGTTGACAGAGAATGTTGCTAACTTTTCCCCCCTGATTTTTACCCGaa                                       >  2:891679/1‑148 (MQ=255)                                                                                                                      ttttAGTGGTAGTTTGTGGCGGCGTATTTTTTCAGCCAAAAACAAAAAAAGGG‑GTTGGCAAGATGAGGGAAAGAAATAAGAAAAAGCCAGTGAATAAGTTTATAGCGATAGTTGCCTACATTATCCCCATGATTTTTACCCGACTGCCt                                  >  1:740435/1‑149 (MQ=255)                                                                                                                        ttAGTGGTAGTTTGTGGCGGTAAATTTTCCCAGACAAATACAAAAACGGGA‑GTGGCCATGAGGAGCGAAAATAATAAGCAACAGGCATTAAATAAGTTGACAGAGATTTTCGCTAATTTTACCGCCATGATTTCTACCCGAATGCCtgat                               <  1:76033/150‑1 (MQ=255)                                                                                                                           gTGGTAGTTTGTGGCGGTGAATTTTTCCCGACAAATACAAAAAATGGG‑GATGCCATGGTGGGGGGAAGTAATAAGCAAAAGGGAGTGAATAAATTGACAGAGATTGTCGCTAACTTTTACGCCATGATTTTTAACCCAAAGGCTGATGACg                           >  2:359853/1‑151 (MQ=255)                                                                                                                            tGGTATTTTGTGGCGGTGAATTTTTCCAGAAAAATAAAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGAAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtgatga                             <  2:819326/148‑1 (MQ=255)                                                                                                                                 gTTTGTGGCGGTGAATTTTTTCCGACAAATACAAAAAATGGA‑GTTGGCATGATGAGGGGAAGAAAAAAACAACAAGCAGTGAAAAAGTTGAGAGAGATTGTTGCTAACTTTACCGCCATGATTTTTTACCCAATGACTGATGACGtggggg                     >  1:621756/1‑151 (MQ=255)                                                                                                                                     gtgGCGGTGAATTTTTTCAGACCAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAACAACAGGCAGTGAATAAATTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGGGGATa                  >  1:929214/1‑150 (MQ=255)                                                                                                                                          ggTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTa             >  2:477528/1‑150 (MQ=255)                                                                                                                                              aaTTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc         >  2:109830/1‑150 (MQ=255)                                                                                                                                               aTTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAg       <  2:805373/151‑1 (MQ=255)                                                                                                                                                    tCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTaa   >  1:680188/1‑150 (MQ=255)                                                                                                                                                     ccAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTaaa  <  2:505331/150‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                       GTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAA  >  NC_000913/3206287‑3206584

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: ‑