Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,712,069:1	+T	100%	intergenic (‑16/+81)	yphF ← / ← yphG	predicted sugar transporter subunit/conserved hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,712,069	1	.	T	96.0%	84.1 / ‑2.6	25	intergenic (‑16/+81)	yphF/yphG	predicted sugar transporter subunit/conserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (1/0);  new base T (24/0);  total (25/0)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

CATTTTTGTAGGCATAGAGCCTCCTGTAGGG‑TTTTT‑ATTAACAACGGCTTATTCTAATTATTTTGT  >  minE/1712039‑1712104                                |                                     cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1183730/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:933705/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:920190/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:82099/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:775630/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:741943/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:551901/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:411854/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:356627/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:226845/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:2011874/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:184286/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1700706/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1666306/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:160744/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1576220/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1547894/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1535382/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1466956/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:138845/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1192189/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1106343/1‑67 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtg   >  1:1687009/1‑66 (MQ=255) cATTTTTGTAGGCATAGAGCCTCCTGTAGGG‑TTTTTCATTAACAACGGCTTATTCTAATTATTTtgt  >  1:953654/1‑67 (MQ=255) cATTTTTGTAGGCAAAGAGCCTCCTGTAGGGTTTTTT‑ATTAACAACGGCTTATTCTAATTATTTtgt  >  1:1697043/1‑67 (MQ=255)                                |                                     CATTTTTGTAGGCATAGAGCCTCCTGTAGGG‑TTTTT‑ATTAACAACGGCTTATTCTAATTATTTTGT  >  minE/1712039‑1712104

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑