breseq  version 0.29.0  revision 8f9c342918e4 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 503 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	357,890	0	C	A	53.8%	16.2 / 58.1	39	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	1,911,754	0	T	G	50.9%	63.6 / 81.0	53	T275P (ACC→CCC)	htpX	putative endopeptidase
*	NC_000913	599,576	0	T	G	49.1%	64.6 / 24.9	59	V288G (GTG→GGG)	cusA	copper/silver efflux system, membrane component
*	NC_000913	1,376,505	0	A	C	46.9%	100.3 / 19.3	64	T158P (ACC→CCC)	ycjR	putative TIM alpha/beta barrel enzyme
*	NC_000913	3,850,007	0	G	A	45.8%	53.6 / 39.3	59	P44S (CCG→TCG)	uhpB	sensory histidine kinase in two‑component regulatory sytem with UhpA
*	NC_000913	357,875	0	A	T	44.7%	36.8 / 16.1	38	N272K (AAT→AAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	993,913	0	G	C	44.4%	87.8 / 15.2	54	G44G (GGC→GGG)	ssuB	aliphatic sulfonate ABC transporter ATPase
*	NC_000913	3,206,435	0	C	T	43.9%	69.1 / 43.7	66	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
*	NC_000913	847,444	0	G	T	43.8%	93.4 / 32.5	64	I187I (ATC→ATA)	glnH	glutamine transporter subunit
*	NC_000913	1,825,061	0	G	A	43.8%	55.0 / 28.1	48	intergenic (‑124/+79)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced
*	NC_000913	3,350,844	0	A	C	43.8%	107.5 / 12.8	64	L728V (TTA→GTA)	arcB	aerobic respiration control sensor histidine protein kinase, cognate to two‑component response regulators ArcA and RssB
*	NC_000913	1,859,660	0	C	A	43.2%	69.5 / 18.3	44	L190F (TTG→TTT)	ydjK	putative MFS sugar transporter, membrane protein
*	NC_000913	1,487,153	0	C	A	42.9%	75.1 / 21.5	42	intergenic (+190/‑82)	hrpA/ydcF	putative ATP‑dependent helicase/DUF218 superfamily protein, SAM‑binding
*	NC_000913	4,336,901	0	T	A	41.7%	64.3 / 21.2	49	Y44F (TAT→TTT)	adiC	arginine:agmatine antiporter
*	NC_000913	366,526	0	T	G	41.6%	121.2 / 27.8	77	T329P (ACC→CCC)	lacI	lactose‑inducible lac operon transcriptional repressor
*	NC_000913	3,443,277	0	A	C	41.4%	159.9 / 31.0	87	V274G (GTA→GGA)	secY	preprotein translocase membrane subunit
*	NC_000913	1,033,102	0	T	C	41.3%	95.4 / 13.4	63	S322P (TCC→CCC)	hyaA	hydrogenase 1, small subunit
*	NC_000913	2,386,862	0	G	A	41.1%	83.9 / 60.5	74	intergenic (+31/‑72)	yfbL/yfbM	putative M28A family peptidase/DUF1877 family protein
*	NC_000913	213,341	0	A	G	40.9%	108.2 / 15.7	66	G337G (GGA→GGG)	tilS	tRNA(Ile)‑lysidine synthetase
*	NC_000913	2,040,075	0	C	G	40.5%	46.2 / 11.9	38	L200V (CTG→GTG)	yedY	membrane‑anchored, periplasmic TMAO, DMSO 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	4542682 =	92 (1.170)	3 (0.040)	3/280	11.8	3.3%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	4542996 =	91 (1.230)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)