Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,755,871	0	T	A	42.3%	32.4 / 10.1	26	G58G (GGT→GGA)	pykF	pyruvate kinase I
Reads supporting (aligned to +/- strand):  ref base T (12/3);  new base A (0/11);  total (12/14)
Fisher's exact test for biased strand distribution p-value = 4.87e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCGAAATGGTTG  >  NC_000913/1755723‑1756016                                                                                                                                                     |                                                                                                                                                   ccATCGGACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTaa                                                                                                                                                  <  1:90971/151‑1 (MQ=255)      ggACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCAGGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑ccg                                                                                                                                            <  2:575624/151‑1 (MQ=255)                         aaGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATAc                                                                                                                         >  1:519414/1‑151 (MQ=255)                                 ttAGCTAAAATGCTGGACGCTGGCATGAACTTTATGCGTCTGACCTTCTCTCAGGGTGACTATGAAAAACACGGTCAGCGCATCCAGAATCTGCGCACCGTGATGAGAAAAACGGAAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAgg                                                                                                                   <  2:131553/149‑1 (MQ=255)                                   aGCAAAAATGTGGGACGCGGGCATGAACTTTATGCGTCTGAACTTCTCTCATGGTGACAATGAAAAACCCGGCCAGCGCATTCAGAATCTGCCCACGGTGATGAACAAATCGGGAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTcc                                                                                                                <  2:613293/150‑1 (MQ=255)                                    gCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCgg                                                                                                              >  1:420693/1‑151 (MQ=255)                                       aaaaGGCGGGGCGCGGGCATGAACGTTATGCGTCTAACTTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGAAACGTGATGAGAAAAACTGGAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCgg                                                                                                              <  2:38122/148‑1 (MQ=255)                                                              cGTTATGCGTCTGAACTTCTCTCATGGTTACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGc                                                                                    >  2:472413/1‑151 (MQ=255)                                                                      gTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAacg                                                                             >  2:550683/1‑150 (MQ=255)                                                                      gTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAacg                                                                             >  2:338278/1‑150 (MQ=255)                                                                                       ggggACTATGAAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGGAATGAGAAAAACGGGAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAAATGGAAGGCGGTAACGACGTTTCTCTGaaa                                                               <  2:178476/144‑1 (MQ=255)                                                                                       ggTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGAAAAACTGTAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAg                                                              <  2:68915/148‑1 (MQ=255)                                                                                         taccTATGCAGACCCCGTCCACCGCATCCAAATTCTCCAAAACGTAAGAAACAAACCGGGAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCt                                                            <  1:658737/145‑1 (MQ=255)                                                                                             tATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTc                                                        >  1:574891/1‑148 (MQ=255)                                                                                                  aaaaCACGGGCAGCGCATTCAGAATCGGCGCAACGTGAGGAGAAAAACTGGAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCttt                                                <  2:29703/149‑1 (MQ=255)                                                                                                         ggaagcccctttCAAATTCTGCGCAAGTTAATGAGAAAAACTGGAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACttt                                           <  1:598083/139‑1 (MQ=255)                                                                                                         ggTCAGCGCTTTCAAAATCTGCGAACCAGGAGGA‑AAAAATTGAAAAAACCCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTc                                          <  2:583406/150‑1 (MQ=255)                                                                                                           tCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTcacc                                       >  2:260336/1‑151 (MQ=255)                                                                                                                   ttaaGAATCGGGGCAAGGTGAGGAGAAAAAGTAATAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATa                                <  1:36390/147‑1 (MQ=255)                                                                                                                        aaTCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTg                          >  1:232617/1‑151 (MQ=255)                                                                                                                               gcAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCgg                   >  2:174743/1‑151 (MQ=255)                                                                                                                                cAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACGGATAAATCTGTTATc                     >  1:31051/1‑148 (MQ=255)                                                                                                                                   cGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAAc               >  2:534396/1‑151 (MQ=255)                                                                                                                                   cGTGAGGAGAAAAACTGGAAAAC‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAAc               <  1:560104/151‑1 (MQ=255)                                                                                                                                             aaacCTGGAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCg           <  2:249274/145‑1 (MQ=255)                                                                                                                                                aCTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCGAAATGGTTg  >  1:309446/1‑151 (MQ=255)                                                                                                                                                     |                                                                                                                                                   CCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCGAAATGGTTG  >  NC_000913/1755723‑1756016

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑