Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,619,230	0	T	C	46.0%	65.1 / 11.5	50	I311V (ATT→GTT)	uraA	uracil permease
Reads supporting (aligned to +/- strand):  ref base T (23/4);  new base C (0/23);  total (23/27)
Fisher's exact test for biased strand distribution p-value = 1.68e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CACTTTCGATTCGATCAAAACACGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTCGACAAGCCATTAGCAAACATCGAACGGTGCAGA  >  NC_000913/2619087‑2619375                                                                                                                                                 |                                                                                                                                                  cACTTTCGATTCGATCAAAACACGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCgccgcc                                                                                                                                            >  1:496610/1‑151 (MQ=255)        gattcgatCAAAACACGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCccgccg                                                                                                                                      >  2:422105/1‑150 (MQ=255)         attcgatCAAAACACGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCccgccg                                                                                                                                      >  2:761356/1‑149 (MQ=255)             gatCAAAACACGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAAcc                                                                                                                                >  1:33197/1‑151 (MQ=255)             gatCAAAACACGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAAcc                                                                                                                                >  1:596170/1‑151 (MQ=255)                cAAAACACGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAAccc                                                                                                                               >  2:892632/1‑149 (MQ=255)                 aaaaCACGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAgg                                                                                                                            >  1:8064/1‑151 (MQ=255)                       cGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGt                                                                                                                      >  2:258390/1‑151 (MQ=255)                        aaaacccGGAACCACCAATGACACAATAAAGCAGAAGCGAACCGCCGCCCACCCCCGCCAATGGGAT‑CATCTGGAAGGCGGCAGCAATTTTCCCGACGCAGAAACGCAGGAAAGCGAAAACCCCCGCCCCGCCGATAACCCAGGTACTGTa                                                                                                                     <  2:624768/146‑1 (MQ=255)                         aaTACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTa                                                                                                                     >  1:106401/1‑150 (MQ=255)                         aaTACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTa                                                                                                                     >  2:77992/1‑150 (MQ=255)                          atcccGGAAGCCCCAATGACACCAAAAAACAGCAGCAACCCGCCGCCCACCCCCGTAAAGGGAAT‑CATGGGAATAGCGCCCGCCAGTTTACCGACGCAGGAAAGCAGGATAGAAAAAACCCCCGCCCCGCCGATAACCCAGGTACTGTaaa                                                                                                                   <  2:92840/148‑1 (MQ=255)                                aaaGCACCGCTGACACCATAAAGCAGCAGCGAAACCCCGCCCATCACCGGCAATGGGAT‑CATCCGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAAAATCGCGAAAATCGCCGCCCCACCGAAACCCCAGGTACTGAAAactc                                                                                                                >  2:443173/2‑146 (MQ=255)                                 aaccACCGATGACACCAAAAAGCAGCAGCGAACCGCCGCCCACCCCCGGCAA‑GGGATCCATCTGGATAGCGGCAGCCATTTTCCCGACGCAGAAAAGCAGGATAGCAAAAACCCCCGCCCCGCCGATAACCCAGGTACTGTAAac                                                                                                                  <  2:471538/142‑1 (MQ=255)                                    cACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGAt                                                                                                         >  2:153851/1‑151 (MQ=255)                                      ccGATGACACAAAAAAGCAGCAGCGAACCGCCGCCCACCCCCGGAAAGGGGAT‑CATCTGGAGAGCGGCAGCCAGTTTCCCGACGCAGAAAAGCAGAAAAGCGAAAACCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGAt                                                                                                         <  1:769972/149‑1 (MQ=255)                                        gATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGcc                                                                                                     >  1:313095/1‑151 (MQ=255)                                                  tAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCa                                                                                            >  1:16909/1‑150 (MQ=255)                                                   aaaGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAAt                                                                                          >  1:420387/1‑151 (MQ=255)                                                         gcagcaAAACGCCGCCCATCCCCGGCAAGGGGAT‑CATCTGGATGGCGGCAGCCAGTTTACCGACGCAGAAAAGCAGGATAGCAAAAATCGCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGttt                                                                                      <  1:684599/149‑1 (MQ=255)                                                              aaaccgccgcCCACCCCCGGAAGGGGGAT‑CATCTGGGTAGCGGCACCCATTTCCCCCAAGAAGGAAAGCAGGATAGAGAAACCCCCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTcc                                                                                 <  2:106365/145‑1 (MQ=255)                                                               aaccgccgcCCATCCCCGGAAAGGGGAT‑CATGTGGATGGCGGCAGCCATTTTCCCGACGCAGAAAAGCAGGATGGCAAAAACCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGt                                                                               <  1:837316/147‑1 (MQ=255)                                                               aaccgccgcCCACCCCCGGCAAGGGGAT‑CATCGGGATGGCGGCACCCATTTTCCCGACGCAGAAAAGCAGGATAGCAAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGt                                                                               <  1:574531/147‑1 (MQ=255)                                                               aaccgccccCCACCCCCGGAAAGGGGAT‑CATCGGAATAGCGGCAGCAATTTTCCCGACGCAGAAAAGAAGGATAGCAAAAACCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATg                                                                                         <  1:436686/137‑1 (MQ=255)                                                                  ccgcgccAACCACCGGCAGGGGTTA‑CATCTTGATGGCGGCATCAACTTCACCGAGGGGGAAAAGAAGAATAAGAAAAACCGCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGt                                                                                        <  1:619859/135‑1 (MQ=255)                                                                    ccgccCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAagt                                                                           >  2:15125/1‑149 (MQ=255)                                                                    ccccccACCCCCGACAATGGAAT‑CATCTGGAAGGCGGCAGCCATTTTCCCGACGCAGGAAAGCAGAATAGCGAAAACCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAagtag                                                                         <  2:705181/148‑1 (MQ=255)                                                                       cccATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTAt                                                                      >  1:576725/1‑151 (MQ=255)                                                                            cccgggCAATGGGTT‑CATCTGGATAGGGGCAGCCAGTTTCCCGACGAAGAAAAGCAGGATAGCAAAACCCCCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTg                                                                   <  1:271045/145‑1 (MQ=255)                                                                            ccccGGAAAGGGGAT‑CATCGGGATAGCGGCAGCCATTTTCCCGCCGAAGAAAAGCAGGAAAGCAAAAACCGCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTg                                                                   <  1:560878/147‑1 (MQ=255)                                                                                ggCAATGGGAT‑CATCTGGATGGCGGCAGCCAGTTTCCCGACGAAGGAAAGCAGGATAGCAAAAACCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTg                                                                   <  1:555994/145‑1 (MQ=255)                                                                                     tGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGcc                                                         >  1:756607/1‑150 (MQ=255)                                                                                            catcTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAaaga                                                    >  2:453310/1‑149 (MQ=255)                                                                                                 ggATAGGGTCAGCCATTTCACCGACGCTGAAAAGGAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGc                                                 <  1:934885/147‑1 (MQ=255)                                                                                                 ggATAGGGGCGCCCATTTTCCCGACGAAGAAAAGCAGAAAAGAAAAAACCGCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAaagaa                                                   <  1:794087/145‑1 (MQ=255)                                                                                                   aTAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGaa                                            >  2:593454/1‑150 (MQ=255)                                                                                                        ggccgcttgttccccGACAAAGAAAAGAAGGATAGCAAAACCCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCAc                                       <  1:58047/137‑1 (MQ=255)                                                                                                        ggCAGCCATTTTACCGACGCAGAAAAGCAGGATAGAAAAAACCGCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAAt                                          <  1:885741/147‑1 (MQ=255)                                                                                                          cccccattcccccGACGCAGGAAAGCAGAATCGAGAAACCCCCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGaa                                            <  2:644106/132‑1 (MQ=255)                                                                                                          cAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTCTTTGGCGTAGAGCCAACGAAGCCGGAAATCACGGt                                    >  2:749001/1‑151 (MQ=255)                                                                                                           aGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTc                                   >  1:913625/1‑151 (MQ=255)                                                                                                              cattttCCCGACGAAGAAAAGCAGAGAAGCGAAACCCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGt                                    <  1:147009/144‑1 (MQ=255)                                                                                                                 tttCCCGCCGCAGAAAAGCAGGATAGCAAAATCCCCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTCGACaa                              <  1:375932/150‑1 (MQ=255)                                                                                                                     ccGAGGCAGAAAAGCAGGATAGCAAAAACCCCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTCGACAAGcc                           <  1:907060/149‑1 (MQ=255)                                                                                                                        aCGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCAGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCAAAAGAAGCCGGAAATCACGGTCGCCAAGCCAtt                        >  2:95478/1‑149 (MQ=255)                                                                                                                             gaaaaGAAGGAAAGAAAAAACCCCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTCGACAAGCCATTAGCaaa                  <  1:84955/148‑1 (MQ=255)                                                                                                                               aaaGAAGGAAAGAAAAACCCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTCGACAAGCCATTAGCAAACa                <  1:422274/150‑1 (MQ=255)                                                                                                                                 agaaGGAAAGCAAAACCCCCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTATTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTCGACAAGCCATTAGCaa                   <  2:29606/142‑1 (MQ=255)                                                                                                                                      gagaagaaaaaTCGCCGCACCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTCGACAAGCCATTAGCaaa                  <  2:147628/134‑1 (MQ=255)                                                                                                                                             aaaaCCGCCCCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTCGACAAGCCATTAGCAAACATCGAACGGTGCAGa  <  2:32575/150‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                  CACTTTCGATTCGATCAAAACACGAATACCGGAAGCACCGATGACACCATAAAGCAGCAGCGAAACGCCGCCCATCACCGGCAATGGGAT‑CATCTGGATAGCGGCAGCCAGTTTACCGACGCAGGAAAGCAGGATAGCGAAAATCGCCGCCCCGCCGATAACCCAGGTACTGTAAACACGGGTGATCGCCATCACGCCAATGTTTTCTCCGTAAGTAGTATTTGGCGTAGAGCCAAAGAAGCCGGAAATCACGGTCGACAAGCCATTAGCAAACATCGAACGGTGCAGA  >  NC_000913/2619087‑2619375

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑