Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,206,435	0	C	T	30.0%	75.5 / 24.0	50	intergenic (‑179/‑28)	ttdR/ttdA	DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha
Reads supporting (aligned to +/- strand):  ref base C (2/33);  new base T (15/0);  total (17/33)
Fisher's exact test for biased strand distribution p-value = 6.04e-11
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

AAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAA  >  NC_000913/3206298‑3206574                                                                                                                                           |                                                                                                                                            aaaaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCa                                                                                                                                           >  1:585682/1‑140 (MQ=255)   aaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGa                                                                                                                                         <  2:426340/140‑1 (MQ=255)   aaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGa                                                                                                                                         <  2:22009/140‑1 (MQ=255)     cATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACa                                                                                                                                       >  1:1075243/1‑140 (MQ=255)        tGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAAt                                                                                                                                    >  2:772285/1‑140 (MQ=255)          ccATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATAc                                                                                                                                  <  2:262147/140‑1 (MQ=255)                  tGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGGATTTTTTTA‑ACAAATACaaaaaaaa                                                                                                                          >  2:1453822/1‑137 (MQ=255)                  tGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAACAAAAAATg                                                                                                                          >  2:1262456/1‑140 (MQ=255)                  tGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTg                                                                                                                          <  2:1197984/140‑1 (MQ=255)                    ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GGAATTTTTCAGACAAAAAAAAAAAATggg                                                                                                                        >  2:1565025/1‑139 (MQ=255)                    ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCCGACAAATAAAAAAAATGGa                                                                                                                        >  1:1313851/1‑140 (MQ=255)                    ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAAACAAATACaaaaaaatga                                                                                                                        >  1:190399/1‑135 (MQ=255)                     tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAg                                                                                                                       <  2:504497/140‑1 (MQ=255)                     tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAg                                                                                                                       <  1:1565025/140‑1 (MQ=255)                         gcgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAAAAAAAAATAGAGGTgg                                                                                                                   >  1:1170342/1‑139 (MQ=255)                                  tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAg                                                                                                          <  1:731951/140‑1 (MQ=255)                                  tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTAGAGTTGCCATGATGAg                                                                                                          <  1:772285/140‑1 (MQ=255)                                     ttcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGa                                                                                                       <  1:558123/140‑1 (MQ=255)                                     ttcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGa                                                                                                       <  1:735485/140‑1 (MQ=255)                                         tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCATGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAAAAAAAAATGGAGTTGCCATGATGAGCGAAAga                                                                                                   >  1:1773684/1‑139 (MQ=255)                                         tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAAATTTTTCAGACAAAAAAAAAAAAAAGAGTTGCCATGATTAGGGGAAga                                                                                                   >  1:1482680/1‑139 (MQ=255)                                         tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGG‑GAAATTTTTCAGAAAAAAAAAAAAAAAGGAGATGCCCTGATGAGGGAAAga                                                                                                   >  2:1561546/1‑139 (MQ=255)                                                  gTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa                                                                                          <  2:1152754/140‑1 (MQ=255)                                                      aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                      <  1:306700/140‑1 (MQ=255)                                                      aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                      <  1:1424615/140‑1 (MQ=255)                                                       ttCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGc                                                                                     <  1:1760617/140‑1 (MQ=255)                                                       ttCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGc                                                                                     <  2:1215865/140‑1 (MQ=255)                                                                tGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAAATTTTTTAAACAAAAACAAAAAAAAGAGGTGGCATGATGAGCGGAAAAAAAAAAAAAAAAGCAGGGAATaa                                                                            >  2:1426653/1‑140 (MQ=255)                                                                  ttAATTACATATTCACGGTGGCAAAAATTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAACAAAAAATAGGGTTGCCATGATGAGCGAAAGTAATAAACAAAAGGCAGTGAaaaaat                                                                          >  1:500772/1‑138 (MQ=255)                                                                    aaTTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTg                                                                        <  2:1075243/140‑1 (MQ=255)                                                                       tACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACa                                                                     <  1:1832634/140‑1 (MQ=255)                                                                            atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAACAAAAAATTGGGGTGGCATGATGAGCGAAAGGAAAAAACAAAAAGCAGTGAATAAATTGAAAgagaa                                                                >  2:496769/1‑139 (MQ=255)                                                                            atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt                                                                <  1:1754890/140‑1 (MQ=255)                                                                                  ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGc                                                          <  2:1096359/140‑1 (MQ=255)                                                                                   gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCt                                                         <  1:815837/140‑1 (MQ=255)                                                                                   gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCt                                                         <  1:1195434/140‑1 (MQ=255)                                                                                    tGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAAACAAATAAAAAAAATGGAGGTGCCATGATGAGCGAAAGTAATAAACAAAAAGCAGTGAATAAATTGACAGAGATTGTCGCTa                                                        >  2:159704/1‑140 (MQ=255)                                                                                     ggCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GGATTTTTTCAGACAAAAAAAAAAAAAAGAGGTGCCATGATGAGGGGAAGAAAAAAAAAACAAGCAGGGGATAAATTGACACAAAATGTCGCTaa                                                       >  2:1152894/1‑140 (MQ=255)                                                                                     ggCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAAAAAAAAATGGAGGTGCCATGATGAGCGAAAATAATAAACAAAAAGCAGAGAATAAATTGAAAGAGAATGTCGCTaa                                                       >  2:692623/1‑140 (MQ=255)                                                                                     ggCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAAATTTTTCCCACAAAAACAAAAAATGGGGGTGCCCTGATGGGCGGAAGAAATAAGCAAAAAGCAGTGAATAAGTTGACAGAGAGTGTGGCTaa                                                       >  2:1555811/1‑140 (MQ=255)                                                                                       cAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAAATTTTTCAGAAAAAAAAAAAAAAACGAGGTGCCATGAATAGCAAAAAAAAAAAAAAAAAAACAATGAATAAAGTGACAGAGATTGTCGCTaaac                                                     >  2:815837/1‑138 (MQ=255)                                                                                          aaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGGGGT‑GAATTTTTCCAGACAAATAAAAAAACGGGAGTTGCCATGATGAGCAAAAGAAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAATTTTa                                                  <  2:1482680/140‑1 (MQ=255)                                                                                          aaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATAAAAAAACGGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAATTTTa                                                  <  2:431132/140‑1 (MQ=255)                                                                                            aatttgaaaCCACATTTTTAGTGGTATTTTGTGGGGGT‑AAATTTTACCACAAAAATACAAAAACTGGAGTTCCCGAAATGAGCAAAATTAATAAGCAACAGGCAGTGAATAAGTGGACAGATATTTGCTCAAACTTCAcc                                                <  2:1872624/134‑1 (MQ=255)                                                                                                taAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAACAAAAAAAGGAGTTGCCATGATGAGCGAAAGAAAAAAAAAAAAAGCAGGGAATAAAATGAAAGAGATTGTCGCCAACTTTTCccccc                                            >  2:236846/1‑139 (MQ=255)                                                                                                aaaaaCCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCAAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCa                                            <  2:1751924/139‑1 (MQ=255)                                                                                                    aCCCCATTTTTAGTGGTAGTTTGTGGCGGT‑AAATTTTTCCAGAAAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGAt                                        <  1:1653147/140‑1 (MQ=255)                                                                                                        caTTTTTAGTGGTAGTTTGTGGCGGT‑GGATTTTTTCAAAAAAAAAAAAAAAATGGGGGTGGCATGATGAGCGGAAGTAATAAAAAAAAAGCAGTGAATAAATTGACAGAGAATGTTGCTAACTTTAACCCCCTGAttttt                                    >  2:669328/1‑138 (MQ=255)                                                                                                          tttttAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGAAAAATACAAAAACTGGAGTTGCCATGATGAGCAAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTAc                                  <  1:1426653/140‑1 (MQ=255)                                                                                                              tAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGAAAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGa                              <  1:69373/140‑1 (MQ=255)                                                                                                                gTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAATTTTACCGCCATGATTTCTACCCGAAt                            <  1:792530/140‑1 (MQ=255)                                                                                                                gTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAAt                            <  1:428887/140‑1 (MQ=255)                                                                                                                        ttGTGGCGGT‑GAATTTTTCCAGAAAAAAACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtgatg                    <  2:585682/140‑1 (MQ=255)                                                                                                                        ttGTGGCGGT‑AAATTTTTCCAGACAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAATTTTACCGCCATGATTTCTACCCGAATGCCtgatg                    <  2:1313851/140‑1 (MQ=255)                                                                                                                         tgtgGCGGT‑GAAATTTTTCCCACAAAAAAAAAAAATGGAGGTGCCATGATGAGGGGAAGGAAAAAACAAAAAACAGGGGATAAATTGACAGAGATTGTCGCTAACTTTTTCCCCATGATTTTTACCCCAATGCCttgtgg                   >  2:1918173/1‑135 (MQ=255)                                                                                                                             gCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGAAAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgtg               <  1:496769/140‑1 (MQ=255)                                                                                                                                   gattttttCCAGAAAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa          <  1:1555811/137‑1 (MQ=255)                                                                                                                                   aaaTTTTTCCAGACAAATAAAAAAACTGGAGTTGCCATGATGAGCAAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa          <  1:236846/139‑1 (MQ=255)                                                                                                                                       ttttCCAGAAAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATaaa      <  1:1918173/140‑1 (MQ=255)                                                                                                                                           ccAGACAAATACAAAAACTGGAGCTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaa  <  1:692623/140‑1 (MQ=255)                                                                                                                                           |                                                                                                                                            AAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAA  >  NC_000913/3206298‑3206574

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑