Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,287,719	0	T	A	44.8%	20.2 / 20.4	29	intergenic (‑348/‑45)	acs/nrfA	acetyl‑CoA synthetase/nitrite reductase, formate‑dependent, cytochrome
Reads supporting (aligned to +/- strand):  ref base T (12/4);  new base A (0/13);  total (12/17)
Fisher's exact test for biased strand distribution p-value = 5.94e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGGCTGCTCCC  >  NC_000913/4287580‑4287859                                                                                                                                            |                                                                                                                                             gATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGcc                                                                                                                                    >  2:309848/1‑150 (MQ=255)          tAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGcaaca                                                                                                                           >  2:106085/1‑150 (MQ=255)                 aaaGTGTTATTTTACATGCACTTAAAATTGATTAAAGACAACATACACAGTGTGGTTTTTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTGGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGgc                                                                                                                      <  2:213631/148‑1 (MQ=255)                 aaaGTGGTTTTTTACATGCACTAACAATTGATAAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGGGAGCAATGTCATGACAGTGTAGGGGGGGTTACTGGCGTGAAAAACAAAAAAAACCGCCATTGCAACAATgg                                                                                                                       <  1:127763/147‑1 (MQ=255)                      ggTATTTTACATGCACTTAAATTTGATTAAAGCCAACTTTCATGGTGTGGTTATTTGTAAAAAAGGGGGGAGAACAATGTCATGACCGTGAAGGGGCGTTTAGTGTTGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTc                                                                                                               <  2:500629/150‑1 (MQ=255)                          ttttACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATg                                                                                                          >  2:352449/1‑151 (MQ=255)                                   cACTTAAAATTGATAAAAGACAACATTCACGGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATAACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTa                                                                                                 <  2:345854/151‑1 (MQ=255)                                          aaTTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACaa                                                                                           <  2:247369/150‑1 (MQ=255)                                           aTTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAgg                                                                                         >  2:85568/1‑151 (MQ=255)                                                  aaaGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGAGAGCAATGTCATGACAGTGAAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATaaa                                                                                    <  1:403296/149‑1 (MQ=255)                                                        aacaTTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGTTTACTGTGGGGAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAac                                                                             <  1:16052/150‑1 (MQ=255)                                                            ttCCCAGTGTGTTTATTTGTTCCACATAGGGGCGAGAAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTAAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAacgc                                                                           <  1:35798/148‑1 (MQ=255)                                                            ttCACAGTGTGTTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTAAAAAACAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAacgcac                                                                         <  1:537616/150‑1 (MQ=255)                                                                         tATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGc                                                           >  1:367197/1‑151 (MQ=255)                                                                           tttGTTACAAATGGGGGCGAGCATTGTCAGGACAGTGTGGGGGGGTTTCCTGTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCt                                                          <  2:274132/150‑1 (MQ=255)                                                                               ttACACATGGGGGGGAGCAATGTCAGGACAGTGTGGGTGGGGTTACTGTGGTAAAAAACAAAAAAACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTAtt                                                      <  2:69829/150‑1 (MQ=255)                                                                                    caTAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTcc                                                >  2:176947/1‑151 (MQ=255)                                                                                     aTAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGTTTATTGATTCCt                                               >  1:296571/1‑151 (MQ=255)                                                                                        ggggCAAGAAATGTAATAACGGTGTGGGTGCGTTTGCTGTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGa                                                    <  2:462172/143‑1 (MQ=255)                                                                                          ggCGAGAAATGTAATAACGGTGTAGGGGCGGTTACTGTCGTGAAAACAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCtttttt                                          <  2:25433/151‑1 (MQ=255)                                                                                             gAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTtttttctt                                       >  2:55519/1‑151 (MQ=255)                                                                                                            aGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTc                         >  2:67320/1‑150 (MQ=255)                                                                                                             gtgtAGGGGCGTTTACTTTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCt                             <  2:167509/145‑1 (MQ=255)                                                                                                                  gggggggTTACTGTCGTAAAAAAAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCa                        <  2:99994/140‑1 (MQ=255)                                                                                                                     gCGTTTACTGTGGTAAAAAAAAAAAAAACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAAc                <  1:57176/150‑1 (MQ=255)                                                                                                                       ggTTACTGTCGTAAAAAAAAAAAAAACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACaaa             <  2:425681/151‑1 (MQ=255)                                                                                                                         ttACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACg           >  2:315311/1‑151 (MQ=255)                                                                                                                                cGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGGCTGCTc    >  2:450957/1‑151 (MQ=255)                                                                                                                                  tGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGGCTGCTccc  >  1:366029/1‑151 (MQ=255)                                                                                                                                    aaaaaaaaaaaaACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGgctgct     <  2:170061/146‑1 (MQ=255)                                                                                                                                    aaaaaaaaaaaaACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGgctgc      <  2:183607/145‑1 (MQ=255)                                                                                                                                            |                                                                                                                                             GATACTGACTAACTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAACAATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGGCTGCTCCC  >  NC_000913/4287580‑4287859

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: ‑