Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,206,435	0	C	T	44.2%	55.4 / 28.4	52	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (7/22);  new base T (23/0);  total (30/22)
Fisher's exact test for biased strand distribution p-value = 8.45e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCT  >  NC_000913/3206286‑3206581                                                                                                                                                      |                                                                                                                                                   aGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTcc                                                                                                                                                   <  1:300800/151‑1 (MQ=255)    gtATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAg                                                                                                                                                 <  2:104829/150‑1 (MQ=255)    gtATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAg                                                                                                                                                 <  1:379045/150‑1 (MQ=255)       tttCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACa                                                                                                                                              >  2:139170/1‑150 (MQ=255)         tCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACaaa                                                                                                                                            >  1:201734/1‑150 (MQ=255)                aCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGAAATTTTTCAGACaaaaaaaaaa                                                                                                                                     >  1:870639/1‑150 (MQ=255)                 cATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAcaaaaacaaaaa                                                                                                                                    >  1:184692/1‑150 (MQ=255)                 cATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAAc                                                                                                                                   <  1:606191/151‑1 (MQ=255)                        aTTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATACAAAAAATg                                                                                                                                 >  1:288862/1‑146 (MQ=255)                        aTTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGtt                                                                                                                            <  2:836336/151‑1 (MQ=255)                               gCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatg                                                                                                                      <  2:52713/150‑1 (MQ=255)                                    ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatgatg                                                                                                                   <  1:773042/148‑1 (MQ=255)                                     gcgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGGGCg                                                                                                               <  1:153415/151‑1 (MQ=255)                                      cgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAATACAAAAAATGGAGTTGGCATGATGAGCg                                                                                                               >  2:910300/1‑150 (MQ=255)                                        cAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGaaa                                                                                                            <  2:791659/151‑1 (MQ=255)                                         aaTATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTTAATTTTTTCAAACCAAAAAAAAAACTTGGGGTGcccttaagag                                                                                                                 >  2:577312/1‑137 (MQ=255)                                                      aTTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAATACAAAAACTGGAGTTGCCATGATGAGCGGAAGTAATAAACaa                                                                                                 >  2:593851/1‑148 (MQ=255)                                                      aTTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACa                                                                                               <  2:129509/150‑1 (MQ=255)                                                          tCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCa                                                                                           <  1:860628/150‑1 (MQ=255)                                                             cgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTTAAAAAAAAACAAAAAAAGGGGTTTCCATGATGAGGGAAAGaaaaaaaaaaaaagcaggg                                                                                        >  1:508179/1‑137 (MQ=255)                                                               ttGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGCGAATTTTTCCACAACAATAAAAAAAACGGAGTTGTCCAGAAGCGGGAAAGCAAAAAACAAAAAGCAGTGa                                                                                       >  2:703720/1‑149 (MQ=255)                                                                 gATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAAAAAAACAAAAACTGGAATTGGCATGATGAGCGGAAGGAATAAGCAACaag                                                                                             >  2:817273/1‑139 (MQ=255)                                                                 gATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATaa                                                                                   <  2:521930/151‑1 (MQ=255)                                                                      aCGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTg                                                                               <  1:233437/150‑1 (MQ=255)                                                                       cGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAAACAAAAAATTGAGGTGCCATGATGAGGGAAAGGAATAAACAAAAAGCAGTGAATaaaat                                                                                >  2:352865/1‑145 (MQ=255)                                                                         aaCTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACag                                                                           <  1:413022/151‑1 (MQ=255)                                                                                     cATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAACAAATAAAAAAACTGGAGTTGGCATGATGAGCGAAAGGAATAAAAAACAAGCAGTGAATAAATTTACAGAGATTGTCg                                                                  >  1:692086/1‑148 (MQ=255)                                                                                       tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATACAAAAACTTGAGGTGCCATGATGAGCGGAAGTAATAAGCAACAAGCAGTGAATAAATTGACAGAGATTGTCGCTaa                                                              >  2:332425/1‑150 (MQ=255)                                                                                        atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGCCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAAc                                                             <  2:331537/150‑1 (MQ=255)                                                                                           cACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAAAAAACAAAAGGCAGGGAATAAGTTGACAGAGAATGTCGCTAACttt                                                          >  2:359353/1‑150 (MQ=255)                                                                                             cGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCCACAAATACAAAAACTGGCGATTTCATGATGAGCGAAAGGAATAAACAAAAAGCAGGGAATAAATTGACAGGAATTTTAGCTaaacttaac                                                       >  2:677170/1‑144 (MQ=255)                                                                                              ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAAAAAAAACAAAAAATGGAGTTGTCATGATGAGCGGAAGTAATAAACAAAAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACttt                                                          >  1:924514/1‑147 (MQ=255)                                                                                                   cAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGAGTTTTTCAGAAAAATAAAAAAAATGGGGATGTCATGATGAGCGAAAGAAATAAACAAAAGGGCGTGAAAAAGTTGACAGAGATTGTCGCTAAATTTatcacc                                                    >  1:716469/1‑143 (MQ=255)                                                                                                      aaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGAGTTGCCATGGTGAGCGGAAGAAAAAAGAAAAAGGCAGGGAATAAGTTGACAGAGATTGTTGCTAAATTTTACGCCATg                                                 >  2:336098/1‑148 (MQ=255)                                                                                                        aaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAAAAATAAAAAAAATTGGGTTGCCATGATGAGCGAAAGAAATAAACAAAAGGCAGGGAATAAGATGGAAGAGATTGTGGCTCAATTTAACGCCATGAttt                                             >  1:267010/1‑150 (MQ=255)                                                                                                           ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAAAAAAACCAAAAATGGGGTTGGCATGATGGGCGGAAGGAAAAAGAAACAAGGCGGGAATAAGTTGACAAAGATTTTCGCTAAATTTATCGCCCTGATTTTTAc                                         >  1:383380/1‑151 (MQ=255)                                                                                                             aaaaCCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCACAAAAATATAAAAAATTGGGTTGGCCTGATGAGGGGAAGGAATAAGCAACAAGGAGTGAATAAAATGGCAGAGAATGTCGGTAAACTTACCGCCATGATTTTTAccc                                       >  1:454264/1‑151 (MQ=255)                                                                                                             aaaaCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATACAAAAAATGGAGTTGCCCGGGTGAGCGAAAGAAATAAAAAACAAGCAGTGAATAAGTTGACAGAGAATGTCGCTAAATTTACCGCCCTGATTTTTAccc                                       >  1:461847/1‑151 (MQ=255)                                                                                                             aaaaCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATAAAAAAAATGGGGTTGGCCTGATGAGGGGAAGTAAAAAGAAACAAGGAGGGAATAAGATGACAGAGAATGTTGCTAAATTTTACGCCATGATTTTTAccc                                       >  1:216732/1‑151 (MQ=255)                                                                                                             aaaaCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACGGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTAccc                                       <  2:211991/151‑1 (MQ=255)                                                                                                              aaaCCACATTTTTAGTGGTAGTTTGTGGCGGTGTATTTTTTCCAACAAAAACAAAAACAGGGGGTTTCGTGATGATGGGAAGAAAAAATAAACAGGCAGCGTATAAAATGACGGAGAGTGGCGTTTAAATTTCCGCCTTGGttttttttc                                       >  1:563460/1‑144 (MQ=255)                                                                                                                      tttttAGTGGTAGTTTGTGGCGGTAAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCt                               <  2:493658/150‑1 (MQ=255)                                                                                                                       ttttAGTGGTAGTTTGTGGCGGTGGATTTTTTCCGACAAAAACAAAAAATGGGGGTGGCCTGATGAGAGGAAGTAAAAAAAAACAAGCGGTGAATAAAATTAAAGAGATTTTCGCTTAATTTACCGCCCTGAGTTTTAccc                                       >  1:253964/1‑141 (MQ=255)                                                                                                                            gTGGTAGTTTGTGGCGGTGATTTTTTCCAGACAAATCCAAAAACTGGAGTTGCCATGATGAGCAAAATTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACg                        <  2:768721/151‑1 (MQ=255)                                                                                                                            gTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGAc                         <  1:76963/150‑1 (MQ=255)                                                                                                                             tGGTAGTTTGTGGCGGTGAAGTTTTCCAGACAAATACAAAAAGTGGAGTTGCCATGATGAGCAAAAATAATAGGCAACAGGCAGTGAATAAGTTGACAGAGATTGCCGCTAATTTTACCGCCATGATTTCTACCCGAATGCCTGATGAc                         <  1:510375/149‑1 (MQ=255)                                                                                                                                   tttGTGGCGGTGAATTTTTCCAAAAAAATACAAAAACTGGATTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgtggtg                   <  1:10846/149‑1 (MQ=255)                                                                                                                                           ggTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTa          >  2:652059/1‑150 (MQ=255)                                                                                                                                           ggTAAATTTTTCCAGAAAAATACAAAAACGGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACt           <  1:900438/149‑1 (MQ=255)                                                                                                                                            gTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaa         >  1:149602/1‑150 (MQ=255)                                                                                                                                                  ttttCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCt  >  1:801170/1‑151 (MQ=255)                                                                                                                                                  ttttCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCt  >  1:582123/1‑151 (MQ=255)                                                                                                                                                  ttttCCAGACAAATAAAAAAACGGGAGTTCCCATGATGAGCGAAGGTAAAAAGCACCAGGCAGTGAATAAGTTGAAAGAGATTGGCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGc   <  1:703700/150‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                   AGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCT  >  NC_000913/3206286‑3206581

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑