Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,206,435	0	C	T	55.8%	10.9 / 65.5	53	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (4/19);  new base T (29/0);  total (33/20)
Fisher's exact test for biased strand distribution p-value = 1.16e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.01e-05

GTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAA  >  NC_000913/3206289‑3206583                                                                                                                                                   |                                                                                                                                                      gtATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCAAg                                                                                                                                                    <  2:53409/150‑1 (MQ=255)  tATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAc                                                                                                                                                  >  1:1047975/1‑151 (MQ=255)      tCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGACaaa                                                                                                                                               >  1:944050/1‑150 (MQ=255)                ttGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCCGAaaaaaaa‑aaaaa                                                                                                                                      >  2:671405/1‑148 (MQ=255)                    cATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGAAAAAAAC‑aaaaaa                                                                                                                                     >  1:802406/1‑144 (MQ=255)                    cATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAAcaaaaac‑aaaaaattg                                                                                                                                  >  1:195908/1‑144 (MQ=255)                      ttCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAC‑AAAAAATgggggt                                                                                                                              >  2:902955/1‑146 (MQ=255)                         ccTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATAC‑AAAAAATGGAGTTg                                                                                                                             >  2:1047672/1‑148 (MQ=255)                         ccTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCa                                                                                                                          <  2:826420/151‑1 (MQ=255)                             ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAaaaaaaa‑aaaaaaatgggtgtccccga                                                                                                                       >  2:743623/1‑135 (MQ=255)                             ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAGAATTTTTTCACACAAAAAC‑AAAAACTGGGGTTGCCatg                                                                                                                        >  1:627315/1‑149 (MQ=255)                             ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAGAATTTTTTCAAACCAATAA‑AAAAACAGGAGTTGCCa                                                                                                                          >  1:283165/1‑147 (MQ=255)                                 ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAg                                                                                                                   <  2:35642/150‑1 (MQ=255)                                 ggCGCAATATTCATTCTTATTTTCGCGTTGATTAACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTCTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGc                                                                                                                  <  2:533073/151‑1 (MQ=255)                                  gcgcAATATTCATTCTTATTTTCGCGTTGCTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAGGATTTTTTCCTAATGACAC‑AAAAACTGGCGtttgcccgagca                                                                                                                    >  2:642824/1‑138 (MQ=255)                                   cgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCACACAAATAC‑AAAAAACGGAGGTTCCCTTATGACCg                                                                                                                 >  2:874363/1‑150 (MQ=255)                                         attcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTTACAAAAAAAA‑AAAAAATGGAGTTGGCATGGTGAggggaa                                                                                                              >  1:639943/1‑142 (MQ=255)                                           tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCCGAAAAAAAA‑AAAAAATGGAGTTGCCATGATGAGGGAAAAtaa                                                                                                          >  2:563073/1‑149 (MQ=255)                                             attcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCCGACAAATAC‑AAAAACTGGAGGTGGCATGATGAGCGAAAGgaataa                                                                                                       >  2:471737/1‑150 (MQ=255)                                                     tttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGCGAATTTTTTCAGACAAATAC‑AAAAAATAGAGTTTCCCTGATGAGCGAAAGAAAAAAATAACAgg                                                                                               >  1:845173/1‑150 (MQ=255)                                                        cgcgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTAAACAAAAAT‑AAAAAATGGAGTTGCTATTTTGAGGGaaaaaaaatatcaaaaa                                                                                                >  1:58143/1‑132 (MQ=255)                                                        cgcgTTGATTCACGAACTGTTAATTACATATTAACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGt                                                                                           <  2:270549/151‑1 (MQ=255)                                                          cgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGa                                                                                         <  1:135645/151‑1 (MQ=255)                                                             tGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAAt                                                                                       <  1:403777/150‑1 (MQ=255)                                                             tGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGAAAAAAAA‑AAAAAATGGAGTTGCCATGATGAGGGGAAAGAAAAAAAAACAAGCAGTGaa                                                                                        >  1:389050/1‑149 (MQ=255)                                                             tGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAACAAAAAC‑AAAAACTTGAGTTGGCATAATGGGCGAAAGAAAAAAAGAACAAGCAGGGaa                                                                                        >  2:215232/1‑149 (MQ=255)                                                                   aCGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAC‑AAAAAATGGAGGTGCCCTGATGAGGGAAAGTAAAAAACAAAAGGCAGGGAATaa                                                                                     >  2:814578/1‑146 (MQ=255)                                                                     gAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACa                                                                              <  1:1005707/151‑1 (MQ=255)                                                                             aaTTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTg                                                                       <  2:834130/150‑1 (MQ=255)                                                                                 aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAAA‑AAAAACTGGAGTTGGCCTGATGAGGGAAAGGAATAAAGAAAAAGGAGTGAAAAAGTTGAAAGAGATTGTCGc                                                                   >  2:210891/1‑150 (MQ=255)                                                                                 aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGc                                                                   <  1:1002001/150‑1 (MQ=255)                                                                                 aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCt                                                                  <  1:949469/151‑1 (MQ=255)                                                                                    tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTAAACAAAAAA‑AAAAAATGGAGTTGGCATGATGAGCGAAAGGAATAAACAAAAAGGAGTGAAAAAGTTGACAGAGAATGTCGCTaa                                                                >  1:791765/1‑150 (MQ=255)                                                                                        cACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCAAACAAATAC‑AAAAAATTGGGTTGCCATGATGAGCGGAAATAATAAACAAAAAGGAGTGAATAAAATGACAGAGAATTTTGCTAAAttt                                                            >  2:587604/1‑150 (MQ=255)                                                                                                  aaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCAACAAAAAA‑AAAAACTGGAGTTGCCATGATGAGCGAAAGGAATAAGCAACAAGCAGTGAATAAGTTGACAGAGATTGGCGCTAACTTTACCGCCATGa                                                  >  2:387612/1‑150 (MQ=255)                                                                                                  aaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGCGAATTTTTTCCTACCAATACAAAAAACGGGGTTTGCCA‑GGTCTGCGAAAGTAATAAACAAAAAGCGGGTAATAAGGTTGTAGAAATTGTTGCTaaacttttccccctga                                                  >  2:1025630/1‑136 (MQ=255)                                                                                                     aaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGAAAAAAAA‑AAAAAATGGGGTTGCCATGATGAGCGAAAATAAAAAACAACAGGCAGTGAATAAAATGACAGAAAATTTCGCTAACTTTTCCGCCAttgtttt                                              >  2:536925/1‑145 (MQ=255)                                                                                                        ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGAAAAATAC‑AAAAACGGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTa                                            <  1:605919/150‑1 (MQ=255)                                                                                                         aaaaaCCACATTTTTAGTGGAAGTTTGTGGGGGTGAATTTTTCCAAAAAAAAAA‑AAAAACTGGAGTTGCCATGATGAGCGAAAGAAATAAGCAACAGGAAGTAAATAAGTGGAAAGAGATTGTCGCTACCTTTACCGCCATGATTTCTAcc                                          <  1:512723/150‑1 (MQ=255)                                                                                                           aaaCCACATTTTTAGTGGTAGTTTGTGGGGTTGATTTTTTCCAAACAAAAAA‑AAAACGGGGAGTTGCCATGATGAGCGAAAGAAATAAGCACCGGGCGTTGAAAAAGTTGACAGAATTTGGCGATAACTTTACCGCCATGATTTCTACCCg                                        <  1:1015372/151‑1 (MQ=255)                                                                                                            accccaaTTTTTAGTGGTATTTTGTGGCGGTGAATTTTTCCAGACAAATCC‑AAAAACTGGAGTTGCCATGATGAGAGAAAGTAATAAGCAACAGGCAGGGAAAAAGTTGACAGAGTTTGTCGCTAACTTTACCGCCATGATTTCTACCCGa                                       <  1:436493/145‑1 (MQ=255)                                                                                                                acaTTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAA‑AAAAACTGGAGTTGCCATGATGAGCGAAAGAAATAAACAACAGGCAGGGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCCTGATTTTTACCCGAATGc                                   >  2:465470/1‑151 (MQ=255)                                                                                                                     tttAGGGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAT‑AAAAACGGGAGTTGCCAGGATGGGAGAAAGAAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTAACAAGTTTTACCGCCATGATTTCTACCCGAATGCCtga                               <  1:469479/150‑1 (MQ=255)                                                                                                                       tgtgggTAGTTTTTGGGGGGAAATTTTCACAAACAAATAC‑AAAAACTGGTTTTACCATGATGAGGAAAATTAAAAAGCAACAGATAGTAAAAATGTTCACAGCGATTTTGTCAATCATTACCGCCATGATTTCTACCCGAATGCCtgatg                             <  1:780457/146‑1 (MQ=255)                                                                                                                           ggTAGTTTGTGGCGGTGAATTTTTTCCGACAAATAC‑AAAAACTGGGGGTGGCATGGTGAGCGAAAATAATAAAAAAAAAGCAGTGAATAAGTTGACAGGGAATGTTGCTAAATTTACCGCCCTGATTTTTACCCGAATGCCtgatggaggg                        >  1:816515/1‑146 (MQ=255)                                                                                                                           ggTAGTTTGGGGCGGTGAATTTTTCCAGAAAAATAC‑AAAAACTGGAGTGGCCAGGAGGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGTTTGTCGTTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgt                         <  2:944189/150‑1 (MQ=255)                                                                                                                            gTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAC‑AAAAACTTGGGTTGCCATGATGAGGGAAAGGAATAAACAACAAGGAGGGAAAAAAATGACAGAGAATTTCGCTAACTTTACCGCCATGATTTTTAACCGCAAGCCTGAAGACgtg                        >  1:77674/1‑150 (MQ=255)                                                                                                                                   gtgGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGAt                  <  2:716773/149‑1 (MQ=255)                                                                                                                                           gAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc        >  2:686472/1‑151 (MQ=255)                                                                                                                                              tttttCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGc     >  1:912728/1‑151 (MQ=255)                                                                                                                                              tttttCCAGAAAAAAAC‑AAAAACTGGATTTGCCATGATGAGCGAAAGTAATAACCAACAGGCATTGAATAAGTGGAAAGAGATTGTCGCTAATTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAg      <  1:961699/150‑1 (MQ=255)                                                                                                                                                 ttCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCTGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTa   >  1:215123/1‑150 (MQ=255)                                                                                                                                                  tCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTaa  >  2:1048155/1‑150 (MQ=255)                                                                                                                                                   |                                                                                                                                                      GTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAC‑AAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAA  >  NC_000913/3206289‑3206583

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑