Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,079,468	0	A	G	46.9%	33.6 / 10.3	32	D55G (GAT→GGT)	putP	proline:sodium symporter
Reads supporting (aligned to +/- strand):  ref base A (4/13);  new base G (15/0);  total (19/13)
Fisher's exact test for biased strand distribution p-value = 7.15e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGATGTTGGTGACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCGGTTGCGTGTGCATACCG  >  NC_000913/1079321‑1079608                                                                                                                                                    |                                                                                                                                                 cGATGTTGGTGACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGatat                                                                                                                                               <  2:85225/151‑1 (MQ=255)  gATGTTGGTGACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATg                                                                                                                                              <  2:60208/151‑1 (MQ=255)       tGGTGACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑g                                                                                                                                        <  1:620274/150‑1 (MQ=255)           gACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGCGGCGGGTATGA‑GC‑gggtgg                                                                                                                                   >  1:588868/1‑151 (MQ=255)             cATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGCGTCGGGTATGA‑GG‑gggtggg                                                                                                                                  >  2:335426/1‑149 (MQ=255)                     gtCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGGGGCCGGTATGG‑GC‑gggcgggggtgttttg                                                                                                                         >  2:271802/1‑137 (MQ=255)                        tataTCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGGGTGGGGGATGA‑GG‑GGGTGGCTGGTTATtggg                                                                                                                       >  1:265050/1‑150 (MQ=255)                         atatCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATgggg                                                                                                                       <  1:203117/149‑1 (MQ=255)                                  gCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGAGTCCGAGTTGG‑GC‑GGCGTGCTGTTGGTTGGGTTGAC‑ggg                                                                                                              >  1:53426/1‑148 (MQ=255)                                     tGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGATGGGGGGGGGATGA‑GA‑GGCTGGCGGGGAATGGGGTTGCT‑ggggggtg                                                                                                         >  1:74724/1‑145 (MQ=255)                                               tgGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGCGGCGGGTTTGA‑GC‑GGGGGGGCGTTTATTGGGGTGGC‑GGGGGCG‑GTttttttttt                                                                                              >  1:41857/1‑149 (MQ=255)                                                    ttATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGGGGTGGGGATGA‑GG‑GGGTGGGGGTTTATGGGGGGTTC‑GGGCGCG‑GGttttttttt                                                                                              >  1:171242/1‑144 (MQ=255)                                                        cGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTTGGTCGGGTATTAGGG‑GGCGGCCTGTGTGGGGGGTT‑TC‑GGGGGCT‑GTtttttttttttggcttttt                                                                                    >  1:320160/1‑140 (MQ=255)                                                         gCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCg                                                                                   <  1:446288/151‑1 (MQ=255)                                                            tGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGCGGCGGGTATGA‑GG‑GGCTGGGTGGTTATTGGGGTGGC‑GGGGGCG‑GTTTTTTTTTTCGGGGttt                                                                                      >  1:365002/1‑145 (MQ=255)                                                             ggCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAg                                                                               <  1:119866/151‑1 (MQ=255)                                                              gCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGGGGCGGAGGTTA‑GCGGGCGGGCGGTAATTGGGGTGGCG‑GGGGCCG‑GTTTTTTTTTTCGGGTTTTcg                                                                                    >  2:701075/1‑145 (MQ=255)                                                                gATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTg                                                                            <  2:656137/151‑1 (MQ=255)                                                                gATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGGGGCGGGGATGA‑GG‑GGGGGGCTGTTTATGGGGTTGGC‑GGGGGCG‑GTTTTTTTTTTCTGGGTTTTCGAAAACTg                                                                            >  2:642839/1‑151 (MQ=255)                                                                      cGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGGGTCGGGTATTA‑GG‑GGGTGGCGGTTTATTGGGGTGCCGGGGGGCG‑TTTTTTTTTTCCGGGTTTTcgcaagagggg                                                                           >  1:611481/1‑137 (MQ=255)                                                                             cTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGGGGGGGGGATTA‑GG‑GGGGGGGGGGTTATTGGGTTGGC‑GGGCGGTGGTTTTTTTTTCTGGGTTTTCGGAAAG‑TGGGTCGcccatgg                                                                >  2:27862/1‑145 (MQ=255)                                                                                          atTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGgc                                                   <  2:709304/150‑1 (MQ=255)                                                                                          atTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGCGGCGGGTATGA‑GG‑GGCTGGGGGTTTATTGGGGTGGC‑GGGCGGC‑GTTTTTTTTTTCCGGGTTTTCGCAAGCTGGGTCGCCACTTGGCTGGCATTTGgcg                                                  >  1:598533/1‑151 (MQ=255)                                                                                                 gCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGGGGCGGGAATGA‑GG‑GGCCGGGTGGTTATGGGGGTGTC‑GGGGGCC‑GGTTTTTTTTTCGGGGGTTTCGAAAAGTGGATCGCCCCTTGCCTGACATTAGGGGCggggg                                            >  1:305936/1‑149 (MQ=255)                                                                                                         aGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTgg                                    <  1:712573/150‑1 (MQ=255)                                                                                                               gggCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCtg                              <  2:426755/150‑1 (MQ=255)                                                                                                                       cGTGACGGCATTATCGGCGGGTGGGGCGGGTATGT‑GC‑GGGGGGGTGGTTTTGGGGTTTTC‑GGGGGCT‑GTTTTTTTTTTCCGGGTTTTCGCAAGCTGGATCGCCCCTGGCCTGGCCTTAGGCGCGTGGGGTAACTGGAAgattgggggcgg                      >  2:515547/1‑139 (MQ=255)                                                                                                                        gTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGAC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAAATGGAAGCTGGTGGCCgg                      <  2:363041/149‑1 (MQ=255)                                                                                                                          gACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCgg                  <  1:45385/151‑1 (MQ=255)                                                                                                                            cGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCGGtt                <  2:392784/151‑1 (MQ=255)                                                                                                                                     cggcggGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCGGTTGCGTGTGCa       <  1:386995/151‑1 (MQ=255)                                                                                                                                         gggTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCGGTTGCGTGTGCATAcc   >  1:124710/1‑151 (MQ=255)                                                                                                                                          ggTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCGGTTGCGTGTGCATACCg  >  2:149062/1‑151 (MQ=255)                                                                                                                                                    |                                                                                                                                                 CGATGTTGGTGACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGA‑GC‑GGCTGGCTGTTAATGGGGTTGCC‑GGGCGCT‑GTTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCGGTTGCGTGTGCATACCG  >  NC_000913/1079321‑1079608

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑