breseq  version 0.33.1  revision 8505477f25b3 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
*	REL606	2,296,329	0	A	C	49.3%	84.0 / 38.2	71	intergenic (‑149/‑66)	inaA/yfaH	hypothetical protein/hypothetical protein
*	REL606	2,631,772	0	A	C	38.3%	82.5 / 19.4	47	intergenic (‑267/‑141)	rpoE/nadB	RNA polymerase, sigma 24 (sigma E) factor/L‑aspartate oxidase
*	REL606	1,688,990	0	A	C	34.8%	87.8 / 14.6	46	T92P (ACC→CCC)	nth	DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III)
*	REL606	3,983,700	0	T	G	32.8%	108.0 / 18.5	58	T397P (ACC→CCC)	ECB_03713	conserved hypothetical protein
*	REL606	1,747,903	0	G	T	30.9%	184.4 / 75.8	84	A8S (GCA→TCA)	ydiL	hypothetical protein
*	REL606	2,197,867	0	T	G	30.9%	87.4 / 15.7	42	A47A (GCA→GCC)	cirA	ferric iron‑catecholate outer membrane transporter
*	REL606	1,795,650	0	A	C	29.5%	99.2 / 10.9	44	V39G (GTG→GGG)	celF	cryptic phospho‑beta‑glucosidase, NAD(P)‑binding
*	REL606	3,492,082	0	T	G	29.2%	164.6 / 20.8	72	V490G (GTG→GGG)	glpD	sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding
*	REL606	1,484,105	0	A	G	28.6%	113.0 / 18.3	56	G55G (GGA→GGG)	ydcU	predicted spermidine/putrescine transporter subunit
*	REL606	275,418	0	A	C	26.5%	169.1 / 14.0	69	F528V (TTT→GTT)	yagW	predicted receptor
*	REL606	4,574,252	0	T	G	24.4%	96.9 / 12.3	42	S5S (TCA→TCC)	hpaX	hypothetical 4‑hydroxyphenylacetate permease
*	REL606	1,176,010	0	T	G	23.9%	179.0 / 12.0	71	A37A (GCA→GCC)	fhuE	ferric‑rhodotorulic acid outer membrane transporter

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	REL606	= 2041061	22 (0.340)	5 (0.080)	3/140	7.2	22.0%	coding (323/1113 nt)	vioA	VioA, involved in dTDP‑N‑acetylviosamine synthesis
	?	REL606	= 2041218	15 (0.250)					coding (166/1113 nt)	vioA	VioA, involved in dTDP‑N‑acetylviosamine synthesis