Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	3,348,217	C→T	intergenic (+124/‑90)	npr → / → yrbL	phosphohistidinoprotein‑hexose phosphotransferase component of N‑regulated PTS system (Npr)/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,348,217	0	C	T	100.0%	234.8 / NA	70	intergenic (+124/‑90)	npr/yrbL	phosphohistidinoprotein‑hexose phosphotransferase component of N‑regulated PTS system (Npr)/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (39/31);  total (39/31)

ATCGTTCTCAATCAACGTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACCTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGTT  >  W3110S.gb/3348160‑3348254                                                          |                                      aTCGTTCTCAATCAACGTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTa                                    <  1:2748151/61‑1 (MQ=255) aTCGTTCTCAATCAACGTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTa                                    <  1:1194184/61‑1 (MQ=255) aTCGTTCTCAATCAACGTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTa                                    <  1:750398/61‑1 (MQ=255)  tCGTTCTCAATCAACGTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTa                                    <  1:1538706/60‑1 (MQ=255)                 gacATTTGTACATTTTGTGCGCTTATCACTTTCAGAAGAACTTTAAGaa                                >  1:2705201/3‑49 (MQ=255)                 gTCATTTTTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2489451/1‑49 (MQ=255)                 gTCATTTGTTCATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:754017/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2771670/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2869046/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2716320/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:267455/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2650147/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2615926/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2483255/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2338319/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2200613/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2087428/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2849313/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:111060/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2880242/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:368133/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:438507/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:452813/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:491494/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:515707/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:772575/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:915836/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:930296/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:975019/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1256871/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:143549/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1452881/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1640512/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1677996/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1272931/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1267461/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:185917/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1217237/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1190095/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1166340/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:1152536/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGaa                                >  1:2085183/1‑49 (MQ=255)                 gTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACTTTAAGa                                 >  1:1561300/1‑48 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:729171/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:678913/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:550189/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:1079091/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:49238/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:1229934/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:482688/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:974787/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:1315917/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:2409044/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:2035100/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:2208231/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:2214755/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:2225618/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:2003363/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:239540/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:2401282/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:406908/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:199243/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:1930134/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:2611856/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:1901177/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:1821649/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:1735816/61‑1 (MQ=255)                                   gcgcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGtt  <  1:1705935/61‑1 (MQ=255)                                     gcTTTTCACTTTCAGAAGAACTTTAAGAAAACCTTAAGAGGCATTTTTTAGGTTTTGtt  <  1:1451787/59‑1 (MQ=255)                                                   gaagaaCTTTAAGAAAACCTTAAGAGGCATTGTTTAGGGTTTGtt  <  1:886112/45‑1 (MQ=38)                                                          |                                      ATCGTTCTCAATCAACGTCATTTGTACATTTTGTGCGCTTTTCACTTTCAGAAGAACCTTAAGAAAACCTTAAGAGGCATTGTTTAGGTTTTGTT  >  W3110S.gb/3348160‑3348254

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑