Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,889,472	0	T	G	51.8%	21.4 / 31.5	27	T210P (ACC→CCC)	cysI	sulfite reductase, beta subunit, NAD(P)‑binding, heme‑binding
Reads supporting (aligned to +/- strand):  ref base T (4/9);  new base G (14/0);  total (18/9)
Fisher's exact test for biased strand distribution p-value = 1.53e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.60e-03

ATGGAAAGCCCACCGCCCACCAACAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGATCTCCGCATACGCGCGGGTACGAGGCAACAGATGCTCAGAAATCTTCTTCGCCCACTCGTACGCTTCCGCGTGCAGCTGCGACTCGTAAGGGT  >  NC_000913/2889324‑2889621                                                                                                                                                     |                                                                                                                                                      aTGGAAAGCCCACCGCCCCCCACCAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCCCGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTc                                                                                                                                                      <  2:649004/150‑1 (MQ=255)                cccaccAACAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGGTCACTACCGTGGTTTTTAATTTTCGCGGCCGGGAGGGCTGGGCGGGGATCgggt                                                                                                                                      >  1:189628/1‑149 (MQ=255)                cccaccAACAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTCCCGTGGGTTTGGATTTACTGGGGCGGTAGGGGTGGCCGGGGGACGGtt                                                                                                                                      >  2:431264/1‑151 (MQ=255)                cccaccAACAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGtt                                                                                                                                      <  2:259871/151‑1 (MQ=255)                  caccaACAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCCTGGTTTTTAATTTACGCGGCGGGGAGGGCTGGGCgggggacgggt                                                                                                                                      >  2:162130/1‑142 (MQ=255)                    ccaACAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGGTACCTACCCTGGTTTTTAATTTTCGCGGGAGGGTGGGCTGGGCGGGGGTGGGgtctt                                                                                                                                   >  2:193042/1‑150 (MQ=255)                    ccaACAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATGACTACCGGGGGTTTGAATTTTCGCGGGAGGGAGGGCTGGGCGAGGGGCGGttttt                                                                                                                                   >  2:354758/1‑150 (MQ=255)                      aaCAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGTTCTtcat                                                                                                                                <  1:23406/151‑1 (MQ=255)                          ggTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATTAATACCGTGGTTTTGAATTTAAGCGGGAGGGAGGGCTGGCCGAGGTGCGGGTATTCATTaga                                                                                                                            >  1:375103/1‑150 (MQ=255)                          ggTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGGTTTTAATTTTCGCGGGCGGGAGGGCTGGCCGGGGGGCGGTTTTTTATTagt                                                                                                                            >  2:96744/1‑151 (MQ=255)                          ggTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGGTTTGAATTTACCCGGCCGGGAGGGCTGGGCGCGGGTCGGTTCTTTATCcgt                                                                                                                            >  2:574123/1‑151 (MQ=255)                          ggTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGGGGGTTTGGATTTACGCGGCAGGGAGGTCTGGCCGGGGGACGGTTCTttattcgg                                                                                                                            >  1:615613/1‑147 (MQ=255)                           gTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGTTCTtcatc                                                                                                                               <  2:12972/147‑1 (MQ=255)                                    caccaGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGGTTTGAATTTACGCGGCAGGTAGGGCTGGGCGAGGATCGGTTCTTCCTCAGTAGTGGCGa                                                                                                                    >  1:96123/1‑149 (MQ=255)                                      ccaGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTTCCCTGGTTTTGAATTTTCTTGGCAGGGAGGGCTGGACGCGGGCCGGTTCTTCTTTAGTTTTGGCGACttt                                                                                                                >  2:275330/1‑151 (MQ=255)                                         gCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGGGGGTTTTGATTTACGCGGCAGGTAGGGCTGGGCGGGGGTCGGGTTTTCATTAGTAGGGGCGGCcttttt                                                                                                             >  1:259888/1‑150 (MQ=255)                                                    tCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGcc                                                                                                  <  2:390677/151‑1 (MQ=255)                                                          aTCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGAtc                                                                                             <  2:644362/150‑1 (MQ=255)                                                                   aaGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGATCTCCGCATAcg                                                                                   <  1:80314/151‑1 (MQ=255)                                                                   aaGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGATCTCCGCATAcg                                                                                   <  1:573945/151‑1 (MQ=255)                                                                     gTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGAACACTACCGCGGTTTTGAAATTACGCCGGACGGAGGTTTGGCCGCGGGTACGGTCTTCCTCACTAGCGGCGACCTTTTTCTGGTCGAGCCCGAACTCCGCCTAcccg                                                                                 >  2:424504/1‑151 (MQ=255)                                                                            tCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTTAATTTACGCGGCAGGGAGGTCTGGCCGGGGATCGGTTCTTCCTCAGGAGTGGCGGCTTTTTTCTGGGCGGGCCCGATCTCCCCCTACGCGCgggga                                                                           >  2:334635/1‑148 (MQ=255)                                                                                    gTGCAGATCGATATCGTTCTGTGGCGGGATCAACACCGGGGGTTTTGATTTAAGCGGCAGGGAGGGCTGGGCGGGGGTCGGGTTTTCATCAGTAGTGGGGACTTTTTTCTGGTGGGGCCAGAACTTCGCCTACGCGCGGGGAAGGGGCaa                                                                   >  2:509664/1‑150 (MQ=255)                                                                                         gATCGATATCGTTCTGTGGCGGGATCACTACCGTGGGTTTGAATTTACCCGGCAGGTAGGGCTGGGCGAGGATCGGGTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGGGGCCGATCTCCGCCTACGCGCGGGGAAGAGGGAACAAATg                                                             >  1:92824/1‑151 (MQ=255)                                                                                              atatCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGGCTGGGCGGGGGTCGGGTTTTTATCAGTAGGGGCGACTTTTTCCTGGGCGGGCCAGATTTCCGCCTACGCGCGGGGGCGGGGGGACAGATGCTTAg                                                        >  2:70405/1‑151 (MQ=255)                                                                                                 tCGTTCTGTGGCGGGATCACTGCCGTGGTTTTGAATTTGCGCGGCAGGTAGTTCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGATCTCCGCATACGCGCGGTTACGAGGCAACAGATGCTCAGaaa                                                     <  2:83581/151‑1 (MQ=255)                                                                                                                                 gAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGATCTCCGCATACGCGCGGGTACGAGGCAACAGATGCTCAGAAATCTTCTTCGCCCACTCGTACGCTTCCGCGTg                      >  2:149583/1‑150 (MQ=255)                                                                                                                                                    gtCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGATCTCCGCATACGCGCGGGTACGAGGCAACAGATGCTCAGAAATCTTCTTCGCCCACTCGTACGCTTCCGCGTGCAGCTGCGACTCGTAAggg   <  2:352827/150‑1 (MQ=255)                                                                                                                                                    gtCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGATCTCCGCATACGCGCGGGTACGAGGCAACAGATGCTCAGAAATCTTCTTCGCCCACTCGTACGCTTCCGCGTGCAGCTGCGACTCGTAAggg   <  1:266837/150‑1 (MQ=255)                                                                                                                                                     tCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGATCTCCGCATACGCGCGGGTACGAGGCAACAGATGCTCAGAAATCTTCTTCGCCCACTCGTACGCTTCCGCGTGCAGCTGCGACTCGTAAGGGt  <  2:189676/150‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                      ATGGAAAGCCCACCGCCCACCAACAGGTTAAAGCCCACCAGCTTGCCGTTTTCGGCGATCGCCACGAAGTTCATGTCGTTGGCGTGCAGATCGATATCGTTCTGTGGCGGGATCACTACCGTGGTTTTGAATTTACGCGGCAGGTAGGTCTGGCCGAGGATCGGTTCTTCATCAGTAGTGGCGACTTTTTCCTGGTCGAGCCAGATCTCCGCATACGCGCGGGTACGAGGCAACAGATGCTCAGAAATCTTCTTCGCCCACTCGTACGCTTCCGCGTGCAGCTGCGACTCGTAAGGGT  >  NC_000913/2889324‑2889621

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑