Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	506,428	0	A	G	41.7%	35.9 / 11.9	36	G505G (GGA→GGG)	ushA	bifunctional UDP‑sugar hydrolase/5'‑nucleotidase
Reads supporting (aligned to +/- strand):  ref base A (8/13);  new base G (15/0);  total (23/13)
Fisher's exact test for biased strand distribution p-value = 9.22e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCTACCCGCAATTTGCCAACGTTAGCTTTGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATCCAGAAAAGCTCGCCGCTGGATGTGAGTGTTTATGAACCGAAAGGTGAGGTGAGCTGGCAGTAATCCGAAAGTGC  >  NC_000913/506289‑506577                                                                                                                                            |                                                                                                                                                      ccTACCCGCAATTTGCCAACGTTAGCTTTGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGGGAGGGGAATTcgcggc                                                                                                                                             >  1:88590/1‑148 (MQ=255)         cAATTTGCCAACGTTAGCTTTGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACa                                                                                                                                    <  1:317078/151‑1 (MQ=255)          aaTTTGCCAACGTTAGCTTTGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATTCGCGCCCTGATaa                                                                                                                                      >  1:299983/1‑148 (MQ=255)           aTTTGCCAACGTTAGCTTTGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGCGATGGGTATCCGCGCCTTGATAaaaa                                                                                                                                   >  1:694929/1‑150 (MQ=255)             ttGCCAACGTTAGCTTTGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGGTATCCGCGCCTTGATaaaaaa                                                                                                                                  >  1:578571/1‑149 (MQ=255)              tGCCAACGTTAGCTTTGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGGGATGGGTATACGCGCCTTTATAACaaaac                                                                                                                                >  2:546680/1‑148 (MQ=255)                 cAACGTTAGCTTTGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGGGCTGGGTATCCCCGCCCTGCTAACAAACCcgg                                                                                                                             >  2:71510/1‑150 (MQ=255)                            ttGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAAt                                                                                                                   <  2:843797/149‑1 (MQ=255)                             tgtgGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGAGGGATATCCGCGGCTTGATAAAAAAACGGGGGAAGTGaa                                                                                                                    >  1:379333/1‑147 (MQ=255)                                                     cGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGAAGGGTATCCCCCCCCTTATAACAAAACGGGGTAAGTGGAAACCGGGTTTATTGATGCCggaatggcg                                                                                        >  2:7686/1‑143 (MQ=255)                                                       aCCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGGGATGGGTATCCGCGCCTTGATAAAAAAACGGGGTCTGTGGATACCGGCTTTATTTTTGCCGGAGTg                                                                                           >  2:733316/1‑146 (MQ=255)                                                        ccTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGCGATGGGTATCTGCGCCCTGATAACAAAACCGGCTTTGTGTATACCCGCCTTATTGTTGCCGGAGGGCTGaa                                                                                      >  2:451765/1‑150 (MQ=255)                                                           tAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAg                                                                                    <  1:175245/149‑1 (MQ=255)                                                             aaaTCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGta                                                                                <  2:23258/151‑1 (MQ=255)                                                             aaaTCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGta                                                                                <  1:445397/151‑1 (MQ=255)                                                             aaaTCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAAAAAAACGGGCTATGTGAATACCGGCTTTATTGATGCCGAAATGCTGAAAGCg                                                                                  >  1:709950/1‑149 (MQ=255)                                                                tCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGGTATCCGCGCCCTGATAAAAAAACCGGCTATGTGAAAAACGGCTTTTTTGATGCCGAAGTGCTGAAAGCGtat                                                                               >  2:608281/1‑149 (MQ=255)                                                                  aaaGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATcc                                                                           <  1:615282/151‑1 (MQ=255)                                                                     ggCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATCCAGa                                                                        <  1:146302/151‑1 (MQ=255)                                                                        gAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGGTATTCCCGCCTTTATAACAAAACGGGCTATGTGAATACCGGGTTTTTTTATGCCGGAGGGCTGAAAGCGGATATCCAGaaa                                                                      >  1:106338/1‑150 (MQ=255)                                                                               tCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGGAATCCGCGCCTTTGTAAAAAACCCGGCTATGTGGATACCGGCTTTTTTTATGACGAAAGGGTGAAAGCGGATATTCAGgaaa                                                                     >  1:53088/1‑144 (MQ=255)                                                                                 gATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGGTGGATATTCGCGCCTTGATAAAAAACCGGGGTATGTGAAAACCGGGGTTTTTTATGCCGAAGTGCTGGAAACGGATATACAGaaaaacccccc                                                              >  1:323033/1‑142 (MQ=255)                                                                                     cGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATCCAGAAAAGCTCGCCGCt                                                           <  1:279118/148‑1 (MQ=255)                                                                                     cGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGAGATCCGCGCCCTGATAACAAAACGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGGTGAAAACGGATATCCAGAAAAAATCGCCGCTggg                                                        >  1:370598/1‑150 (MQ=255)                                                                                      ggCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGAGGGGGATCCGCGCCTTCATAAAAAACCGGGGTATGTGAATATCGGCGTTTTTTAGGCCCAAGAGCATAAAGCGGATAACCAGAAAAAATCCCCGCggg                                                         >  1:84989/1‑149 (MQ=255)                                                                                      ggCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGGGAAGGGTATTCGCGCCTTTAAAAAAAACCGGGCCCTGGGGATAACGGCCTTTTTTTTTCCGACGTGCTGAAAACGTTACACCAGAAAAAATCCACGCTgg                                                         >  2:677452/1‑149 (MQ=255)                                                                                         gAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATCCAGAAAAGCTCGCCGCTGGAtgtg                                                    <  1:516663/151‑1 (MQ=255)                                                                                          aaaaCTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGGTATTCGCGCCTTGATAACAAAACGGGCTATGTGAATAACCGCTTTTTTGATGCCGAAGTGCTGAAAACGGATATCCCGAAAAGATCGCCGCTGGGtg                                                      >  1:342840/1‑148 (MQ=255)                                                                                            aaCTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCCTGATAACAAAACGGGCTCTGTGGATACCGGCTTTATTGATTCCGCAGAGCTGTAAGCGGATATCCAGAAAAGCTCGCCGCTGGGTGTGAg                                                  >  2:609894/1‑150 (MQ=255)                                                                                                tACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATCCAGAAAAGCTCGCCGCTGGATGTGAGTGtt                                              <  1:69383/150‑1 (MQ=255)                                                                                                   cGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAAACGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATTCAGAAAAGCTCGCCGCTGGGTGTGAGGGttt                                             >  1:75274/1‑148 (MQ=255)                                                                                                                 aaaCTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATCCAGAAAAGCTCGCCGCTGGATGTGAGTGTTTATGAACCGAAaggtga                             <  2:901145/150‑1 (MQ=255)                                                                                                                   aCTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAAAAAAACGGGCTATGTGAATAACGGCTTTATTGATGCCGAAGTGGTGAAAGCGTATATCCAGAAAAGCTCGCCGCTGGGTGTGGGTGGTTATGAACCGAAaggggagg                           >  1:832789/1‑150 (MQ=255)                                                                                                                        aaTGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATCCAGAAAAGCTCGCCGCTGGATGTGAGTGTTTATGAACCGAAAGGTGAGGTGAGCt                     <  1:220467/151‑1 (MQ=255)                                                                                                                         aTGCCACCGGCGGTGATGGGTATCCGCGCCTTGATAACAAACCGGGCTATGTGAATAACGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATTCAGAAAAGCTCGCCGCTGGATGTGAGGGTTTATGAACCGAAAGGGGAGGGGAGCTg                    >  1:495519/1‑151 (MQ=255)                                                                                                                                           gATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATCCAGAAAAGCTCGCCGCTGGATGTGAGTGTTTATGAACCGAAAGGTGAGGTGAGCTGGCAGTAATCCGAAAGTGc  <  1:652392/151‑1 (MQ=255)                                                                                                                                            |                                                                                                                                                      CCTACCCGCAATTTGCCAACGTTAGCTTTGTGGCGAAAGACGGCAAACTGAACGACCTTAAAATCAAAGGCGAACCGGTCGATCCGGCGAAAACTTACCGTATGGCGACATTAAACTTCAATGCCACCGGCGGTGATGGATATCCGCGCCTTGATAACAAACCGGGCTATGTGAATACCGGCTTTATTGATGCCGAAGTGCTGAAAGCGTATATCCAGAAAAGCTCGCCGCTGGATGTGAGTGTTTATGAACCGAAAGGTGAGGTGAGCTGGCAGTAATCCGAAAGTGC  >  NC_000913/506289‑506577

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑