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%	67.1 / 23.9	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

AGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAC  >  NC_000913/3206286‑3206577                                                                                                                                                      |                                                                                                                                                aGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTcc                                                                                                                                                <  1:710637/151‑1 (MQ=255)    gtATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAg                                                                                                                                              <  1:37405/150‑1 (MQ=255)       tttCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCaaa                                                                                                                                             >  1:922559/1‑146 (MQ=255)        ttCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCA‑ACaaa                                                                                                                                         >  2:541295/1‑150 (MQ=255)          cGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAaaaa                                                                                                                                         >  2:442942/1‑149 (MQ=255)          cGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAt                                                                                                                                        <  1:935206/150‑1 (MQ=255)          cGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATa                                                                                                                                       <  1:655948/151‑1 (MQ=255)            cAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACaaaaa                                                                                                                                       >  2:339946/1‑147 (MQ=255)              aaaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACaaa                                                                                                                                   <  1:862939/151‑1 (MQ=255)                 cATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAAc                                                                                                                                <  1:479384/151‑1 (MQ=255)                  aTTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATAaaaaaa                                                                                                                                 >  2:649107/1‑149 (MQ=255)                     gCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGa                                                                                                                            <  1:446483/151‑1 (MQ=255)                           cccTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAGAATTTTTTCAGAAAAATAAAAAAACTGGAGtttgc                                                                                                                      >  1:955728/1‑148 (MQ=255)                            ccTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCa                                                                                                                     <  1:662867/151‑1 (MQ=255)                                    ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCTTGAAAAACCAAAAAATGGAGTTg                                                                                                                        >  1:13399/1‑140 (MQ=255)                                    ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatgatg                                                                                                                <  2:193370/148‑1 (MQ=255)                                    ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatgatg                                                                                                                <  1:413421/148‑1 (MQ=255)                                     gcgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAAATGGGGTTGCCATGATGAggg                                                                                                            >  2:948539/1‑149 (MQ=255)                                      cgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATACAAAAAATGGAGTTTTCATGATGAGCg                                                                                                            >  1:26961/1‑150 (MQ=255)                                       gcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGaa                                                                                                          <  1:809407/151‑1 (MQ=255)                                          atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATAAAAAAAATGGAGTTGCCATGATGAGCg                                                                                                            >  1:810936/1‑146 (MQ=255)                                           tatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAAATGGAGTTGCCATGATGGGCGaaa                                                                                                         >  2:641551/1‑148 (MQ=255)                                              tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAAAAAAAAATGGAGGTGCCATGATGAGCGGAAGtaa                                                                                                     >  1:399438/1‑149 (MQ=255)                                               cattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGtaataa                                                                                                  <  1:329016/151‑1 (MQ=255)                                                           cgcgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGt                                                                                      <  1:750160/151‑1 (MQ=255)                                                            gcgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTg                                                                                     <  1:938860/151‑1 (MQ=255)                                                              gTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAAAAAAAAAAAAAAATGGAGGTGGCATGATGAGGGAAAAAAATAAACaaaa                                                                                            >  2:543237/1‑140 (MQ=255)                                                                  aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAAAAAAAACAAAAAATGGAGTTGGCATGATGAGGGAAAGAAATAAACAAAAAGCAGGG‑Aaaaa                                                                               >  2:546357/1‑150 (MQ=255)                                                                      aCGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAAATGGAGTTGCCATGATGAGCGAAAGGAATAAACAACAAGCAGTG‑AATAAAtt                                                                            >  1:835110/1‑149 (MQ=255)                                                                         aaCTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAACAAATATAAAAAATTGGGTTGGCATGATGAGCGAAAGTAAAAAAGAACAAGCAGGG‑AATAAgat                                                                            >  2:49736/1‑144 (MQ=255)                                                                             gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACagag                                                                     <  2:771213/149‑1 (MQ=255)                                                                             gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAgaga                                                                    <  1:725085/150‑1 (MQ=255)                                                                             gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTTAAACAAAAAAAAAAAATGGAGATGGCATGATGAGAGAAAGGAATAAACAAAAGGGAGGGAAAAAAGTTGaa                                                                         >  2:791936/1‑145 (MQ=255)                                                                              ttAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGAt                                                                   <  2:668832/150‑1 (MQ=255)                                                                               tAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATTGGGTTGGCATGGTGAGGGGAAGTAAAAAAAAAAAGGCAGGG‑GAAAAGTTGACAGAGAtt                                                                  >  2:601545/1‑150 (MQ=255)                                                                               tAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGACAAAAACAAAAAAAGGAGTTGCCATGATGAGCGGAAGTAATAAGCAACAAGCAGTG‑AATAAGTTGACAGAGAtt                                                                  >  2:922199/1‑150 (MQ=255)                                                                                        atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATACAAAAAATGGAGTTGCCATGATGAGCGGAAGTAATAAACAAAAGGCAGTG‑AATAAGTTGACAGAGAATGTCGCTaa                                                          >  1:246291/1‑149 (MQ=255)                                                                                        atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGGATTTTTTCTGATAAATACAAAAAATGGGGTTGTCACGATGGGGGAAAACAAAAAACAACAAGAAGGG‑AATAAAGTGAAAGAGATTGTCGc                                                             >  1:720724/1‑146 (MQ=255)                                                                                         ttCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGCATTTTTTCAAAAAAAAAAAAAAAAATGAATTGCCATTAGGAAAGTAAGCAATAAAAAACAAGGAGGG‑AATAAGGTGGAAGAGAATGTc                                                               >  1:311414/1‑143 (MQ=255)                                                                                          tCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACtt                                                       <  1:445339/150‑1 (MQ=255)                                                                                                     aaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGCGAATTTTTTCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGAt                                           >  2:319997/1‑151 (MQ=255)                                                                                                       aaaaaaaaaaCCACATTTTTAGTGGTAGTTTGTGGGGGTGAATTTTTCAAGAAAAAAAAAAAAACTGGAGTGGCAAGGATGAGCGAAAGTAAAAAGCAACAGGCAGGG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGAttt                                         <  2:941984/145‑1 (MQ=255)                                                                                                       aaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGAttt                                         <  1:641559/151‑1 (MQ=255)                                                                                                       aaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGAttt                                         <  1:807577/151‑1 (MQ=255)                                                                                                           ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAAAAAAAAAAAAAATAGGGTTGGCATGATGAGGGAAAGAAATAAGAAAAAGGCAGAG‑AATAAAATGACAGAGAATGTTGCTAAATTTAACGCCATGAttttt                                       >  2:217257/1‑147 (MQ=255)                                                                                                                 ccACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAAAAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAAt                               <  1:677809/151‑1 (MQ=255)                                                                                                                      tttttAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTGGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGc                             <  1:557292/148‑1 (MQ=255)                                                                                                                       ttttAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCAAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtg                          <  2:85546/150‑1 (MQ=255)                                                                                                                         ttAGTGGTAGTTTGTGGCGGTAAATTTTTCCAGACAAATACAAAAACGGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtgat                        <  1:631000/150‑1 (MQ=255)                                                                                                                          tAGTGGTAGTTTGTGGCGGTGGATTTTTTCACACAAAAACAAAAAACGGGGGTGGCATGATGAGGGGAAGGAATAAACAAAAGGGAGTG‑AAAAAATTGAAAGAGAATGTCGGTTACTTTAACGCCCTGAATTTTACCCCAATGCCtcatg                       >  2:211662/1‑150 (MQ=255)                                                                                                                            gTGGTAGTTTGTGGCGGTAAATTTTTCCAGACAAAAACAAAAACGGGAGTTGCCATGATGAGCAAAAGAAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACg                    <  1:649115/151‑1 (MQ=255)                                                                                                                               gTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCATTA‑AATAAGTTGACAGAGATTGTCGCTACCTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgtgg                 <  2:315023/151‑1 (MQ=255)                                                                                                                                   tttGTGGCGGTGAATTTTTCCAGAAAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgtggtg               <  2:148996/149‑1 (MQ=255)                                                                                                                                       gggCGTTGATTTTTTCCAGAAAAATAAAAAAACTGGAGTTGCCATGATGAGAGAAAGTAATAAGAAACAGGCAGTA‑AATAAGTTGAAAGAGATGGTCTCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATaaa         <  2:404450/150‑1 (MQ=255)                                                                                                                                               aaTTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc  >  1:698160/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                                AGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTG‑AATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAC  >  NC_000913/3206286‑3206577

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: ‑