breseq  version 0.35.4  revision f352f80f4bc9 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,111,747	0	G	T	41.4%	33.0 / 27.3	29	N156K (AAC→AAA)	yiiQ	DUF1454 domain‑containing protein YiiQ
*	NC_000913	4,568,504	0	T	G	35.6%	140.0 / 10.6	75	T6P (ACC→CCC)	mdtM	multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter
*	NC_000913	4,604,344	0	C	T	34.8%	84.2 / 34.2	66	S62F (TCT→TTT)	bglJ	DNA‑binding transcriptional regulator BglJ
*	NC_000913	4,296,060	0	C	T	28.6%	123.6 / 50.5	70	intergenic (+266/+376)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
*	NC_000913	753,125	0	T	A	25.9%	114.1 / 19.8	54	intergenic (‑330/+60)	ybgD/gltA	putative fimbrial protein YbgD/citrate synthase
*	NC_000913	3,206,435	0	C	T	25.0%	82.1 / 14.9	40	intergenic (‑179/‑28)	ttdR/ttdA	DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha
*	NC_000913	4,287,719	0	T	A	20.7%	205.2 / 29.4	82	intergenic (‑348/‑45)	acs/nrfA	acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4542690	62 (0.800)	3 (0.040)	3/258	6.2	4.3%	intergenic (+57/‑425)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit
	?	NC_000913	= 4542986	74 (1.020)					intergenic (+353/‑129)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit