Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,287,710	0	G	A	42.5%	53.7 / 22.3	47	intergenic (‑339/‑54)	acs/nrfA	acetyl‑CoA synthetase/nitrite reductase, formate‑dependent, cytochrome
Reads supporting (aligned to +/- strand):  ref base G (21/6);  new base A (0/20);  total (21/26)
Fisher's exact test for biased strand distribution p-value = 2.41e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GTTGAAAAAGAGGAAGATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGGCT  >  NC_000913/4287565‑4287853                                                                                                                                                  |                                                                                                                                                gTTGAAAAAGAGGAAGATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGaaaaa                                                                                                                                            <  2:308424/151‑1 (MQ=255)        aaGAGGAAGATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATaaa                                                                                                                                     <  1:768233/151‑1 (MQ=255)           agGAAGATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAAc                                                                                                                                  <  1:582807/151‑1 (MQ=255)               aGATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGcc                                                                                                                              <  2:230342/151‑1 (MQ=255)                gATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGcc                                                                                                                              >  1:274739/1‑150 (MQ=255)                          aaCTCTAAAGTGGGATTTTACATGCACTTACAAGTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGACAAACAATAAAAACCGCCATTGcaaca                                                                                                                     >  2:414383/1‑149 (MQ=255)                                aaaGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGgcgc                                                                                                              >  1:635363/1‑150 (MQ=255)                                  aGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAAt                                                                                                           >  2:363502/1‑151 (MQ=255)                                    tGGTATTTTACATGCACTTACAATTTATAAAAGACAACATTCACAGTGTGTTTTTTTGTTACACATAGGGGGGAGAATTGTCATAACAGTGTAGGTGCGGTTACTGTCGTAAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAAtt                                                                                                          <  1:626613/150‑1 (MQ=255)                                    tGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTc                                                                                                         >  1:626132/1‑151 (MQ=255)                                    tGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTc                                                                                                         >  1:51557/1‑151 (MQ=255)                                    tGGTATTTTACATGCACTAAAAATTGATTAAAAACATCATCCACAGTGTGTTTATGTGTTACACATAGGGGCGAACAATTTCATGACAGTGAAGGTGCGTTTACTGTCGTAAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAAtt                                                                                                          <  2:523820/150‑1 (MQ=255)                                      gTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATGGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCg                                                                                                        <  1:41865/150‑1 (MQ=255)                                         ttttACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATg                                                                                                    >  1:103140/1‑151 (MQ=255)                                               aTGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGccc                                                                                              >  1:293281/1‑151 (MQ=255)                                                     ttACAATTGATAAAAAACAACATTCACAGTGTGGTTATTTGTAACACATAGGGGCGAGCAATGTCATGACAGTGTGGGTGCGGTTACTGTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTAt                                                                                          <  2:564461/149‑1 (MQ=255)                                                      tACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGAc                                                                                       >  1:758106/1‑151 (MQ=255)                                                       aaaaTTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACAGATGGGGGCAAGCAATGCCATGACAGTTTAGGTGCATTTACGTTCTGAAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGAc                                                                                       <  2:773913/148‑1 (MQ=255)                                                         aaTTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTAAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATg                                                                                         <  1:506465/146‑1 (MQ=255)                                                                   aGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAAt                                                                           >  2:733268/1‑150 (MQ=255)                                                                      caacaTTCAAAGTGAGGTTATTTGTTACAAATAGGGGCGAGCAATGTCATGAAAGTGCAGGTGCGGTTACTGTCGAGAAAAACAATAAAAACCGCAATTGCAACAATGGTGCAATTCGGATGAAGCCCCTATGAAAAGGATAAAACTaa                                                                         >  2:590280/1‑149 (MQ=255)                                                                           ttCACAGTGTGGTTATTTGTTACACATAGGGGCGAGAAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTAAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAacgca                                                                    <  1:723551/149‑1 (MQ=255)                                                                             cacaGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGcc                                                                >  1:767086/1‑151 (MQ=255)                                                                             cacaGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGcc                                                                >  1:57181/1‑151 (MQ=255)                                                                                    tgGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCtt                                                         >  2:276534/1‑151 (MQ=255)                                                                                     gtttATTTGTTACACATGGGGGCGAGAAATGTCATGACAGTGTGGGGGGGGTTACTGTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCt                                                          <  1:685737/147‑1 (MQ=255)                                                                                     ggTTATTGTTAACAAATAGGGGCGAGCAATGTAATGACAGTGTAGGTGCGGTTACTGTCGTAAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCtt                                                         <  2:598701/150‑1 (MQ=255)                                                                                          tttGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCtt                                                   >  1:629491/1‑151 (MQ=255)                                                                                          tttGTTACAAATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGTTTACTGTGGTAAAAAACAAAAAAACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGc                                                     <  1:44257/149‑1 (MQ=255)                                                                                          tttGTAACACATAGGGGCGAGCAATGTAAGGACAGGGTAGGTGCGGTTACTGTCGTAAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCt                                                    <  2:391161/150‑1 (MQ=255)                                                                                             gtaacacATGGGGGCGAGAAATGTAATGACATTGTAGGTGCGTTTACTGTTGAAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTag                                                 <  2:485884/147‑2 (MQ=255)                                                                                              ttACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTg                                               >  1:721395/1‑151 (MQ=255)                                                                                                acacATAGGGGCGAGCAATGTCATGACAGTGTGGGGGCGGTTACTGTCGGAAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTg                                               <  1:155684/149‑1 (MQ=255)                                                                                                acacAAGGGGGCGAGCAATGTTATGCTAGTTTGGGCGGGTTTACTGACGTGAAAACAAAAAAAACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTg                                               <  2:722220/149‑1 (MQ=255)                                                                                                  acaTAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTc                                           >  2:272340/1‑151 (MQ=255)                                                                                                   caTAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTcc                                          >  2:450674/1‑151 (MQ=255)                                                                                                             agaaatctaaggACAGTGTGGGTGGGTTTATTCTCGTAAAAAACAAAAAAACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTtttttc                                   <  2:531300/137‑1 (MQ=255)                                                                                                                aatttaaTGACGGTGTAGGTGCGGTTACTGGCGTAAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTtttttcttt                                <  1:538101/142‑1 (MQ=255)                                                                                                                 aTGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTtttttctttttc                             >  1:369484/1‑150 (MQ=255)                                                                                                                   gTCATGCCAGTGTGGGTGCGGTTACTGTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTAGGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCAc                           <  2:513644/150‑1 (MQ=255)                                                                                                                    tCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACtt                         >  1:680705/1‑151 (MQ=255)                                                                                                                     cATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTc                        >  1:401885/1‑151 (MQ=255)                                                                                                                       tGAAAGTGTGGGGGGGGTTCCTGTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACtt                         <  1:749397/148‑1 (MQ=255)                                                                                                                         aCAGTGTAGGTGGGTTTACTGTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTc                        <  1:365592/147‑1 (MQ=255)                                                                                                                                  gtgtGGTTCCTGTGGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCa                  <  2:51090/144‑1 (MQ=255)                                                                                                                                            ggTCGTAAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTGTCTTTTTCACTTCTGTTCACGCTGAACAAACGgct  <  2:586098/149‑1 (MQ=255)                                                                                                                                             gTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGgct  <  1:754614/149‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                GTTGAAAAAGAGGAAGATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGGCT  >  NC_000913/4287565‑4287853

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑