Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,079,468	0	A	G	57.1%	4.2 / 12.7	14	D55G (GAT→GGT)	putP	proline:sodium symporter
Reads supporting (aligned to +/- strand):  ref base A (0/6);  new base G (8/0);  total (8/6)
Fisher's exact test for biased strand distribution p-value = 3.33e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.05e-03

CCGATGTTGGTGACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGAGCGGCTGGCTGTTAAT‑GGGGTTGCCGGGCGCTG‑TTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCGGTTGCGTGTG  >  NC_000913/1079320‑1079601                                                                                                                                                     |                                                                                                                                        ccGATGTTGGTGACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGata                                                                                                                                       <  2:237354/151‑1 (MQ=255)     tGTTGGTGACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGAg                                                                                                                                   <  2:13535/151‑1 (MQ=255)                     tgtCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGAGCGGCTGGCTGTTAAt                                                                                                                    <  1:66686/150‑1 (MQ=255)                                       gATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGGCGGGGATTATGGGCTGGCGGTTTAT‑TGGGGTGCCGGGGGCTG‑tt                                                                                               >  2:302510/1‑151 (MQ=255)                                       gATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGCGGCGGGTATGAGCGGGTGGCTGTTTAT‑GGGGGTGGCGGGGGCTggt                                                                                                >  1:262360/1‑149 (MQ=255)                                        atatTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGGGGCGGGTATTAGCGGCTGGGTGGTAAT‑TGGGTTGGCggggggcggtt                                                                                               >  1:69517/1‑143 (MQ=255)                                        atatTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGGGGCGGGTATGAGCGGCTGGGTGTTTAT‑TGGGGTGGCGGGCGCTG‑gtt                                                                                              >  1:212888/1‑151 (MQ=255)                                                   gTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGGGTGGGGTATGAGGGGGTGGGTGGTTAT‑TGGGGTGGCGGGGGGGG‑TTTTTTTTTTCggg                                                                                   >  2:128856/1‑151 (MQ=255)                                                                               tttGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGAGCGGCTGGCTGTTAAT‑GGGGTTGCCGGGCGCTG‑TTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGcc                                                       <  1:141990/151‑1 (MQ=255)                                                                                    cgacTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGAGCGGCTGGCTGTTAAT‑GGGGTTGCCGGGCGCTG‑TTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACa                                                  <  1:50358/151‑1 (MQ=255)                                                                                      acTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGGTATTAGCGGGTGGTTGTTAAT‑TGGGGTGCCGGGCGGTG‑TTTTTTTTTTCGGGATTTTCGGAAGATTGGTTCCCCTTTGCCTGCCAtt                                                >  1:206660/1‑151 (MQ=255)                                                                                      acTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGGGTCGGGTATGAGGGGGTGGGTGTTTATGGGGGTGGCGGGGGGGGG‑TTTTTTTTTCGGGGGTTTCGGAAA‑AGGGGTCGCCCTTGGCCCGGCAtt                                                >  2:152745/1‑151 (MQ=255)                                                                                           atTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGAGCGGCTGGCTGTTAAT‑GGGGTTGCCGGGCGCTG‑TTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGgcg                                           <  1:260965/151‑1 (MQ=255)                                                                                                     gTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGGGCGGCGGGTATGAGGGGGTGGCTGTTTAT‑GGGGGTGCCGGGGGGTGTTTTTTTTTTCCGGGGTTTCGGAAGATGGGTTGGCCATTGGCC‑GACAtttagggggggggttta                                 >  1:121990/1‑136 (MQ=255)                                                                                                                                    aTCGGCGGGTGCGTCGGATATGAGCGGCTGGCTGTTAAT‑GGGGTTGCCGGGCGCTG‑TTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCGGTTGCGtgtg  <  2:170127/151‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                        CCGATGTTGGTGACATTTTGTGTCTATATCTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGATCAACGAAAAACTTTGACGACTATATTCTGGGCGGTCGTAGTCTTGGGCCATTCGTGACGGCATTATCGGCGGGTGCGTCGGATATGAGCGGCTGGCTGTTAAT‑GGGGTTGCCGGGCGCTG‑TTTTTCTTTCCGGGATTTCCGAAAGCTGGATCGCCATTGGCCTGACATTAGGCGCGTGGATTAACTGGAAGCTGGTGGCCGGGCGGTTGCGTGTG  >  NC_000913/1079320‑1079601

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑