Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,755,871	0	T	A	42.9%	44.6 / 17.0	35	G58G (GGT→GGA)	pykF	pyruvate kinase I
Reads supporting (aligned to +/- strand):  ref base T (18/2);  new base A (0/15);  total (18/17)
Fisher's exact test for biased strand distribution p-value = 4.19e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CATCGGACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCGAAATGGTTGC  >  NC_000913/1755724‑1756017                                                                                                                                                    |                                                                                                                                                     cATCGGACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑aaa                                                                                                                                                  <  1:315049/151‑1 (MQ=255) cATCGGACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑a                                                                                                                                                    >  2:643612/1‑149 (MQ=255)                           agaTGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCa                                                                                                                        >  1:344000/1‑150 (MQ=255)                                  agaaaaaaggggggACGCGGGCATAACCGTTGCCCGTCTGACCTTCTCTCAGGGTGAATATGAAAAACGCGGCCAGCACTTCCAGATTCGGCGCAACGTAGAGAGAAAAACTGGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTc                                                                                                                  <  2:702954/137‑1 (MQ=255)                                    cTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCgg                                                                                                               >  1:94024/1‑150 (MQ=255)                                     aaaaaGGCGGGCCGCTGGCATGAACGTTATGCGTCTAACCTTCTCTCATGGTGACTATGCAGACCACGGCCAGCGCATTAAAAATCGGCGCAACGTGAGGAGAAAAACGGGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCgg                                                                                                               <  1:353428/148‑1 (MQ=255)                                      aaaaTGCTGGCCGCGGGATGGAACGTTATGCGTCTGAACTCCTCTCATGGTACATAAACAAAACACGTTCAGCGCATTCAGAATCGGCGCAACGAAAGGACAAAACCGGGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGaa                                                                                                             <  2:387897/150‑1 (MQ=255)                                      aaaaTGCTGGACGCTGGCAAAAACGTTATGCTTCTTAACTTCTCTCTTGTTGACTATGAAAACCACGGTCAGCGCATTCAGAATCTGCACAATGTTATGAGAAAAACTGTA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGaa                                                                                                             <  1:732694/150‑1 (MQ=255)                                              ggACGTGGGCATGAACTTTTGGCGTCTAATCTCCTCTAAGGGTGACAAGACAAAAACCGGGAAGCCAATTAAAAATCGCCGCACGGTGATAAGAAAAAGTGAA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCAcc                                                                                                    <  2:359503/151‑1 (MQ=255)                                               gACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCAcc                                                                                                    >  2:15367/1‑150 (MQ=255)                                                  gCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATg                                                                                                 >  1:272117/1‑150 (MQ=255)                                                           aaCGTTATGCGTCTGACCTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGAGGAGAAAAACTGGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAg                                                                                       <  1:759697/151‑1 (MQ=255)                                                                   gCGTCTGAACTTCTCTCATGGTGACTATGCAGAACCCGGTCAGCGCATTAAGAATCTGCCCACCGTGATGAGAAAACCTGGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCgg                                                                                   <  1:94814/147‑1 (MQ=255)                                                                                   cATGGTGATTATGAAAAACGCGGTCAGCGCATTCAGAATCGGCGCAAGGTGATGAGAAAAACTGGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGa                                                                  <  1:836812/148‑1 (MQ=255)                                                                                     tGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCt                                                             >  1:361228/1‑151 (MQ=255)                                                                                        taaCTATGAAAACCACGTTCAGCGCATTCAAAATCTGCGCAACGTGATGAAAAAAACTGGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTgg                                                           <  1:250972/148‑1 (MQ=255)                                                                                        tGACTATGAAAAACCCGTTCAGCCTTTTCAAAATCTGCGAACTGTGAGGAAAAAATCTGGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTctct                                                                    <  1:95570/141‑1 (MQ=255)                                                                                          aCTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTc                                                         >  1:18455/1‑150 (MQ=255)                                                                                             aggCAGAACACGGTCGGCGCTTTCAGAATCTGCGCAACGTGATGAG‑AAAAATGGTAAAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGa                                                      <  1:742855/148‑1 (MQ=255)                                                                                                 acacccctgtaaGCGCATACAGACTCGCCGCAGAGTAAAAAGCAAAATTAGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAAGCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCtt                                                  <  2:17950/139‑1 (MQ=255)                                                                                                 aGAACCCGGACAGCGCATTAAGAATCTGCGCAACGTAAGGAGAAAAATTGAA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGAc                                                     <  2:54422/147‑1 (MQ=255)                                                                                                     cacGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACtt                                             >  2:782573/1‑151 (MQ=255)                                                                                                      acGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACttt                                            >  2:100310/1‑151 (MQ=255)                                                                                                        ggTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTc                                           >  2:80991/1‑150 (MQ=255)                                                                                                                  ttaaaaaTCTGCGCAACGTGATGAAAAAAACTGGA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTcacca                                       <  1:729265/139‑1 (MQ=255)                                                                                                                      gAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCt                            >  1:156133/1‑151 (MQ=255)                                                                                                                      gAATCAGCGCAAGGTGAT‑AAAAAAACCGGA‑AAAACCCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACttt                                            <  2:482636/135‑1 (MQ=255)                                                                                                                            gcgcAACGTGATGAGCAAAACTGGT‑AACA‑CCGCCGCTATCCGGCTTGATACGAAAGGGCCGGAAATCCGCACCATGCAACTGGAAAGCGTTAAAGACGTTTCTCTGAAACCTGGACAGACCTTTACTTTCACCACTGATAAATCTGTTATc                      >  2:555557/1‑151 (MQ=255)                                                                                                                                aaCGTGATGAGAAAAACTGAA‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGc                   <  1:15369/150‑1 (MQ=255)                                                                                                                                   gTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAAc                >  2:301689/1‑150 (MQ=255)                                                                                                                                    tgatgaGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAAc                >  2:29497/1‑149 (MQ=255)                                                                                                                                         aGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCGaa          >  1:819216/1‑150 (MQ=255)                                                                                                                                              aaCTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCGAAATGGtt    >  2:547979/1‑151 (MQ=255)                                                                                                                                               aCTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCGAAATGGTTg   >  1:832422/1‑151 (MQ=255)                                                                                                                                                cTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCGAAATGGTTGc  >  1:855092/1‑151 (MQ=255)                                                                                                                                                    |                                                                                                                                                     CATCGGACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGT‑AAAA‑CCGCCGCTATCCTGCTTGATACCAAAGGTCCGGAAATCCGCACCATGAAACTGGAAGGCGGTAACGACGTTTCTCTGAAAGCTGGTCAGACCTTTACTTTCACCACTGATAAATCTGTTATCGGCAACAGCGAAATGGTTGC  >  NC_000913/1755724‑1756017

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑