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 498 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	501,575	0	A	C	55.2%	67.5 / 93.4	58	V555G (GTG→GGG)	ybaL	inner membrane putative NAD(P)‑binding transporter
*	NC_000913	501,564	0	A	C	50.0%	80.1 / 20.6	58	*559E (TAA→GAA)	ybaL	inner membrane putative NAD(P)‑binding transporter
*	NC_000913	753,125	0	T	A	47.1%	53.3 / 26.8	51	intergenic (‑330/+60)	ybgD/gltA	putative fimbrial‑like adhesin protein/citrate synthase
*	NC_000913	354,288	0	T	G	46.4%	81.5 / 14.6	56	V528G (GTG→GGG)	prpE	propionate‑‑CoA ligase
*	NC_000913	345,328	0	C	A	46.0%	91.7 / 43.1	63	intergenic (+337/‑76)	yahL/yahM	uncharacterized protein/uncharacterized protein
*	NC_000913	1,478,324	0	T	G	45.8%	72.3 / 13.9	48	G33G (GGT→GGG)	ynbB	putative CDP‑diglyceride synthase
*	NC_000913	1,376,505	0	A	C	45.1%	78.3 / 14.3	51	T158P (ACC→CCC)	ycjR	putative TIM alpha/beta barrel enzyme
*	NC_000913	357,890	0	C	A	44.7%	36.4 / 28.9	38	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	941,713	0	T	G	44.4%	92.8 / 18.9	63	V252G (GTG→GGG)	dmsA	dimethyl sulfoxide reductase, anaerobic, subunit A
*	NC_000913	3,206,435	0	C	T	44.4%	64.9 / 51.2	72	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
*	NC_000913	659,940	0	T	A	44.3%	85.5 / 30.2	61	I93F (ATT→TTT)	lipA	lipoate synthase
*	NC_000913	4,112,599	0	T	G	43.4%	142.1 / 21.1	85	G95G (GGT→GGG)	yiiR	DUF805 family putative inner membrane protein
*	NC_000913	925,900	0	A	G	43.1%	85.1 / 19.3	58	noncoding (72/88 nt)	serW	tRNA‑Ser
*	NC_000913	4,112,578	0	T	G	42.9%	129.6 / 24.8	86	G88G (GGT→GGG)	yiiR	DUF805 family putative inner membrane protein
*	NC_000913	599,576	0	T	G	42.4%	113.1 / 24.7	66	V288G (GTG→GGG)	cusA	copper/silver efflux system, membrane component
*	NC_000913	2,781,645	0	A	C	42.1%	127.7 / 18.5	76	V361G (GTT→GGT)	ypjA	adhesin‑like autotransporter
*	NC_000913	29,496	0	T	A	41.7%	94.5 / 41.0	72	intergenic (+301/‑155)	dapB/carA	dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
*	NC_000913	1,764,785	0	T	A	41.5%	89.8 / 34.2	65	intergenic (‑399/+149)	sufA/ydiH	Fe‑S cluster assembly protein/uncharacterized protein
*	NC_000913	1,860,667	0	A	C	41.3%	113.4 / 10.7	63	G222G (GGT→GGG)	ydjL	putative Zn‑dependent NAD(P)‑binding oxidoreductase
*	NC_000913	1,825,061	0	G	A	40.7%	77.3 / 31.7	60	intergenic (‑124/+79)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced

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	= 1757085	75 (0.940)	28 (0.350)	8/298	8.2	27.2%	coding (1388/1413 nt)	pykF	pyruvate kinase I
	?	NC_000913	= 2290113	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region
*	?	NC_000913	= 1757085	75 (0.940)	9 (0.110)	4/298	10.2	10.7%	coding (1388/1413 nt)	pykF	pyruvate kinase I
	?	NC_000913	= 2067353	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region