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 86 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	357,890	0	C	A	58.3%	‑4.8 / 25.5	25	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	357,880	0	T	C	57.7%	11.2 / 31.2	26	K271E (AAA→GAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	2,326,450	0	T	G	53.3%	33.5 / 46.7	31	G114G (GGT→GGG)	atoB	acetyl‑CoA acetyltransferase
*	NC_000913	501,564	0	A	C	51.6%	42.5 / 55.0	32	*559E (TAA→GAA)	ybaL	inner membrane putative NAD(P)‑binding transporter
*	NC_000913	501,575	0	A	C	51.5%	40.3 / 53.5	33	V555G (GTG→GGG)	ybaL	inner membrane putative NAD(P)‑binding transporter
*	NC_000913	3,443,277	0	A	C	50.0%	55.3 / 18.4	46	V274G (GTA→GGA)	secY	preprotein translocase membrane subunit
*	NC_000913	357,887	0	C	A	48.0%	13.9 / 10.7	25	L268F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	5,159	0	G	A	46.0%	24.1 / 24.6	37	intergenic (+139/‑75)	thrC/yaaX	L‑threonine synthase/DUF2502 family putative periplasmic protein
*	NC_000913	1,312,215	0	T	A	46.0%	49.8 / 15.6	37	D11V (GAT→GTT)	yciA	acyl‑CoA esterase
*	NC_000913	4,346,685	0	C	T	44.1%	26.7 / 15.4	34	E214E (GAG→GAA)	fumB	anaerobic class I fumarate hydratase (fumarase B)
*	NC_000913	4,346,703	0	C	T	44.1%	36.5 / 13.8	35	L208L (CTG→CTA)	fumB	anaerobic class I fumarate hydratase (fumarase B)
*	NC_000913	354,288	0	T	G	44.0%	78.6 / 10.2	50	V528G (GTG→GGG)	prpE	propionate‑‑CoA ligase
*	NC_000913	3,397,538	0	C	T	42.9%	40.4 / 15.8	35	K86K (AAG→AAA)	rng	ribonuclease G
*	NC_000913	1,755,871	0	T	A	42.3%	32.4 / 10.1	26	G58G (GGT→GGA)	pykF	pyruvate kinase I
*	NC_000913	3,412,898	0	C	T	40.5%	36.3 / 30.1	42	A190T (GCC→ACC)	acrS	acrAB operon transcriptional repressor
*	NC_000913	4,465,787	0	G	A	40.0%	42.9 / 15.8	41	R132C (CGC→TGC)	treB	trehalose‑specific PTS enzyme: IIB and IIC component
*	NC_000913	3,678,419	0	C	T	39.5%	51.5 / 12.3	38	intergenic (‑69/+1)	yhjG/yhjH	putative inner membrane‑anchored periplasmic AsmA family protein/cyclic‑di‑GMP phosphodiesterase, FlhDC‑regulated
*	NC_000913	3,743,669	0	G	A	39.4%	33.7 / 18.5	33	E313K (GAA→AAA)	yiaK	2,3‑diketo‑L‑gulonate reductase, NADH‑dependent
*	NC_000913	4,256,061	0	C	T	39.2%	62.5 / 17.9	51	E136K (GAA→AAA)	plsB	glycerol‑3‑phosphate O‑acyltransferase
*	NC_000913	4,465,763	0	T	G	39.0%	44.0 / 16.8	41	M140L (ATG→CTG)	treB	trehalose‑specific PTS enzyme: IIB and IIC component

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 =	35 (0.800)	9 (0.220)	9/280	4.6	22.2%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	4542996 =	30 (0.730)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
*	?	NC_000913	= 4542690	38 (0.870)	8 (0.190)	8/280	5.0	19.6%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	= 4542986	30 (0.730)					intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)