Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,628,625	0	A	C	42.9%	60.5 / 13.9	43	V105G (GTC→GGC)	yfgF	cyclic‑di‑GMP phosphodiesterase, anaerobic
Reads supporting (aligned to +/- strand):  ref base A (19/5);  new base C (0/18);  total (19/24)
Fisher's exact test for biased strand distribution p-value = 1.06e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TCTCTGCTCGCCAGTAATCCTACAAATGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATGCCGCCCAGCTGAAAAACATCATCAT  >  NC_000913/2628481‑2628773                                                                                                                                                  |                                                                                                                                                     tctcTGCTCGCCAGTAATCCTACAAATGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTg                                                                                                                                                 <  2:316125/150‑1 (MQ=255)     tGCTCGCCAGTAATCCTACAAATGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGCCCCTGt                                                                                                                                                <  1:240678/147‑1 (MQ=255)      gCTCGCCAGTAATCCTACAAATGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCg                                                                                                                                           >  1:457053/1‑151 (MQ=255)        tCGCCAGTAATCCTACAAATGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGcc                                                                                                                                         >  2:516546/1‑151 (MQ=255)            cAGTAATCCTACAAATGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCa                                                                                                                                      >  1:161002/1‑150 (MQ=255)             agaaacccTAAAAATGCAGCAAACTGGAAAAGTACAAGAAACAGCGTTGCAGGAACAACAACCGGCCAGAATATACGCGGGGAAATTAACCGGGTACCCCCATGTGAACCGTTTTTA‑CGCCGGGGAGAAAGCCCCCTGTACCCGCCCCAAc                                                                                                                                    <  1:431093/145‑1 (MQ=255)                 acccaaCAAATGCAGCAACCGGAAAAAGTATCAAAAACAGCGTGGCAGGAAACCCAATCTGCGAAAATAGCCGCTGGAAAATAAACCGGGTATCCCCATGTGAAACGTTTTTC‑CGCGGGGGAATAAAGCCCCTGTAACCGCCCCAACagag                                                                                                                                <  1:204242/146‑1 (MQ=255)                 aTCCTACAAATGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACag                                                                                                                                  >  1:77924/1‑149 (MQ=255)                  tCCTACAAATGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACag                                                                                                                                  >  1:437410/1‑148 (MQ=255)                   ccTAAAAATGCAGAAAACTGAAAAAGTACCAGAAACGGCGTGGCAGAAACCCCAATCTGCAAAAATATACGCGGGAAAATTAACCGGGTATCCCCTTGTAAAATGTTGTTC‑CGCGGGGGAGAAAAGCCCCTGTAACCGCCCCAACagag                                                                                                                                <  1:457552/149‑1 (MQ=255)                          aTGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGaatgataat                                                                                                                       >  2:343886/1‑151 (MQ=255)                                  aaCTGAAAAAGTATCAGAAACAGCGTTGCAGAAAACACATTCTGCCAGAATATACGCTGGAAAATTAACCGGGTATCCCCATGTGAAACTTTGTTA‑CGCCGGGGAGAAAAGCCCCTGTAACCGCCCCAACAGAGAATGATAATGAtaataa                                                                                                               <  2:497975/151‑1 (MQ=255)                                        aaaaTTATCAAAACCAGCGTGGCAGAAACCACAATCTGCCAGAATATACGCTGGGAAATTAAACGGTTATCACCATGTGAAACGTTTTTC‑CGCCGGGAAGTAAAGCCCTTTTAACCGCCCCAACAGAGAATGATAATGAtaataa                                                                                                               <  2:288700/145‑1 (MQ=255)                                                 aGAAACAGCGTTGCAGGAAACACAATCTGCCAAAATATACGCTGGGAAATTAAACGGGTACCCCCATGTGAAACGTTGTTC‑CGCCGGGGAGTAAAGCCCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAAt                                                                                                 <  2:535318/150‑1 (MQ=255)                                                    aaCAGCGTTGCGGGAAACAAAATCTGCCAAAATATGCCGGGGGAAAAAAAACGGGTTTCCCCATGGGAAAATTTGTTA‑CCCCGGGGAGAAAAAGCCCTTGAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATa                                                                                             <  2:175475/151‑1 (MQ=255)                                                       aGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCg                                                                                          >  2:536991/1‑151 (MQ=255)                                                        gcgtaacAGCAAACACAACCGCCCAGAATATGCGGGGGAAAATAAAACGAGTACCACCATGTGAACCTTTTTAC‑CGCGGGGGAGTAAAGCCCCTTTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGt                                                                                         <  2:325750/145‑1 (MQ=255)                                                             gCAGGAAACACAATCTGCCAAAATATACGCTGGAAAATTAAACGGGTATCCCCATGTGAAACGTTGTTA‑CGCCGGGGAGAAAAGCCCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCg                                                                                     <  2:75509/150‑1 (MQ=255)                                                                     cacaATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAAcc                                                                             >  1:343842/1‑150 (MQ=255)                                                                          tCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGctc                                                                       >  2:206438/1‑151 (MQ=255)                                                                            tGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTg                                                                     >  1:18498/1‑151 (MQ=255)                                                                                aaaaTATACGCGGGGAAATAAAACGGGTATCCCCATGTAAAACGTTGTTA‑CGCCGGGGAGAAAAGCCCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGct                                                                        <  1:95418/142‑1 (MQ=255)                                                                                     atccGCTGGAAAATTAAACGGGTATCCCCATGTGAAACTTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTg                                                             <  2:395124/147‑1 (MQ=255)                                                                                     atccGCTGGAAAATAAAACGGGTATCCCCTTGTAAAGCTTTTTAC‑CGCCGGGGAGAAAAGCCCCTTAAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTg                                                             <  2:88998/147‑1 (MQ=255)                                                                                         gCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGa                                                         >  1:91314/1‑150 (MQ=255)                                                                                               aaaTTAAACGGGTATCACCATGGGAAACGTTGTTA‑CGCGGGGGAGAAAAGCCCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAAt                                                  <  1:77771/151‑1 (MQ=255)                                                                                                    aaccGGGTACCCCCATGAGAAAGGTTGTAA‑CGCCGGGGAGAAAAGCCCCTTTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCt                                              <  1:330348/147‑1 (MQ=255)                                                                                                    aaaCGGGAATCACCATGTAAACCTTTTTTA‑CCCGGGGGAGAAAAGCCCCTATAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATccc                                               <  2:536141/149‑1 (MQ=255)                                                                                                       cGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAgg                                          >  2:184174/1‑151 (MQ=255)                                                                                                           tATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGAt                                      >  2:30986/1‑151 (MQ=255)                                                                                                             tCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATcc                                    >  1:134109/1‑151 (MQ=255)                                                                                                               aCCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCt                                  >  1:12726/1‑151 (MQ=255)                                                                                                                ccttgtaAAACGTTGTTA‑CGCGGGGGAGTAAAGACCCTTTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATccc                                   <  1:113225/146‑1 (MQ=255)                                                                                                                    gtaaaaCGTTGTTA‑CGCCGGGGAGTAAAGCCCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATccc                                   <  1:507450/142‑1 (MQ=255)                                                                                                                       aaaaGTTGTTC‑CGCGGGGAAGAAAAGCCCCTATAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATg                           <  1:42604/150‑1 (MQ=255)                                                                                                                       aaaCGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATgc                          >  2:197566/1‑151 (MQ=255)                                                                                                                        aaCGTTTTTACCGCCGGGAAGAAAAGCCCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTgg                                <  1:51067/145‑1 (MQ=255)                                                                                                                        aaCGTTGTTA‑CGCGGGGGAGTAAAGACCCTTTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATgcc                         <  1:488839/151‑1 (MQ=255)                                                                                                                                   cGCCGGGGAGAAAAGACCCTGAAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATGCCGCCCAGCTGa               <  1:249782/151‑1 (MQ=255)                                                                                                                                    gCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATGCCGCCCAGCTGa               >  2:234409/1‑150 (MQ=255)                                                                                                                                       gggaAGAAAAGCCCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATGCCGCCCAGCTGaaaa            <  2:144129/150‑1 (MQ=255)                                                                                                                                            gTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATGCCGCCCAGCTGAAAAAcatc       >  2:394148/1‑150 (MQ=255)                                                                                                                                                aGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATGCCGCCCAGCTGAAAAAcatcatcat  >  2:415038/1‑151 (MQ=255)                                                                                                                                                  |                                                                                                                                                     TCTCTGCTCGCCAGTAATCCTACAAATGCAGCAAACTGGAAAAGTATCAGAAACAGCGTTGCAGGAAACACAATCTGCCAGAATATACGCTGGGAAATTAAACGGGTATCACCATGTGAAACGTTGTTA‑CGCCGGGGAGTAAAGACCCTGTAACCGCCCCAACAGAGAATGATAATGATAATAAAATTAGCCGTTAATGATAGCGTTTCGTAAAAACCCAGCTCTGCATATTTGCGGACAAAAATCCCTAAGGCGATCCCTGGCAATGCCGCCCAGCTGAAAAACATCATCAT  >  NC_000913/2628481‑2628773

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: ‑